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Conserved domains on  [gi|149388721|gb|EAZ63914|]
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pre-mRNA splicing factor [Scheffersomyces stipitis CBS 6054]

Protein Classification

Surp and PRP21_like_P domain-containing protein( domain architecture ID 11274277)

protein containing domains SWAP, Surp, and PRP21_like_P

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRP21_like_P pfam12230
Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is ...
 189-391 6.92e-79

Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with pfam01805. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form.


:

Pssm-ID: 403444  Cd Length: 213  Bit Score: 242.34  E-value: 6.92e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  189 QLNDADKMISNAYKRAQYDKMNKVERKEKQKLIEQKQAHFASIDWQDFAIVGMIEFDAIDEVKELPAPLSRENLLYRSLE 268
Cdd:pfam12230   1 NLSDKQHILSRAYKRAEWRKHKEQEEQKKEEEEEEERIAFASIDWHDFVVVETIEFDDSDEVLELPKPLTLEQLIYRSLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  269 SKSKDLEL-----PAPAPVSTAKTDEDKVKVATVSKPPAI-----KGMKIRAAGESRLKKSEVSTTSGVEPSIKCPITGK 338
Cdd:pfam12230  81 QKSKALEEadpvtDVEMEEDEEEEEPSKDKIAKKSKPSAVsdsppKNMKIRAAGEPRLKKRKNPTPPAQKKKAKCPITGQ 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 149388721  339 MIPESKFDNHLKVLLRDPRYKQEQENFVRKNFSYASNLTTDQVYENIKRIVRK 391
Cdd:pfam12230 161 LIPEDEFDEHMRILLLDPRYKEQKDKYVQKNFKESSNLTTDDVYRNLKRLAKK 213
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 114-167 3.99e-12

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


:

Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 60.61  E-value: 3.99e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 149388721  114 DIIKLTALYVAKNGDEYAKKLQNheiKVGNRAQFDFVNE-KHSLNKLFRQYIDQY 167
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLME---REERNPQFDFLFDpDDPLHAYYRWKLEEY 52
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 20-66 6.13e-11

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


:

Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 57.21  E-value: 6.13e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 149388721    20 IDKTVGYVLKNGLSFEQRLLANNTEH-KFDFLTPENEYYNYYKWKIDG 66
Cdd:smart00648   4 IDKTAQFVARNGPEFEAKLMERERNNpQFDFLKPNDPYHAYYRKKLAE 51
 
Name Accession Description Interval E-value
PRP21_like_P pfam12230
Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is ...
 189-391 6.92e-79

Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with pfam01805. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form.


Pssm-ID: 403444  Cd Length: 213  Bit Score: 242.34  E-value: 6.92e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  189 QLNDADKMISNAYKRAQYDKMNKVERKEKQKLIEQKQAHFASIDWQDFAIVGMIEFDAIDEVKELPAPLSRENLLYRSLE 268
Cdd:pfam12230   1 NLSDKQHILSRAYKRAEWRKHKEQEEQKKEEEEEEERIAFASIDWHDFVVVETIEFDDSDEVLELPKPLTLEQLIYRSLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  269 SKSKDLEL-----PAPAPVSTAKTDEDKVKVATVSKPPAI-----KGMKIRAAGESRLKKSEVSTTSGVEPSIKCPITGK 338
Cdd:pfam12230  81 QKSKALEEadpvtDVEMEEDEEEEEPSKDKIAKKSKPSAVsdsppKNMKIRAAGEPRLKKRKNPTPPAQKKKAKCPITGQ 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 149388721  339 MIPESKFDNHLKVLLRDPRYKQEQENFVRKNFSYASNLTTDQVYENIKRIVRK 391
Cdd:pfam12230 161 LIPEDEFDEHMRILLLDPRYKEQKDKYVQKNFKESSNLTTDDVYRNLKRLAKK 213
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 114-167 3.99e-12

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 60.61  E-value: 3.99e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 149388721  114 DIIKLTALYVAKNGDEYAKKLQNheiKVGNRAQFDFVNE-KHSLNKLFRQYIDQY 167
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLME---REERNPQFDFLFDpDDPLHAYYRWKLEEY 52
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 20-66 6.13e-11

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 57.21  E-value: 6.13e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 149388721    20 IDKTVGYVLKNGLSFEQRLLANNTEH-KFDFLTPENEYYNYYKWKIDG 66
Cdd:smart00648   4 IDKTAQFVARNGPEFEAKLMERERNNpQFDFLKPNDPYHAYYRKKLAE 51
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 20-65 7.24e-11

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 57.14  E-value: 7.24e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 149388721   20 IDKTVGYVLKNGLSFEQRLLANN-TEHKFDFLTP-ENEYYNYYKWKID 65
Cdd:pfam01805   3 IKKTAQFVARNGPEFEALLMEREeRNPQFDFLFDpDDPLHAYYRWKLE 50
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 113-168 1.66e-10

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 56.06  E-value: 1.66e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 149388721   113 LDIIKLTALYVAKNGDEYAKKLQNheiKVGNRAQFDFVNEKHSLNKLFRQYIDQYS 168
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLME---RERNNPQFDFLKPNDPYHAYYRKKLAEYR 53
 
Name Accession Description Interval E-value
PRP21_like_P pfam12230
Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is ...
 189-391 6.92e-79

Pre-mRNA splicing factor PRP21 like protein; This domain family is found in eukaryotes, and is typically between 212 and 238 amino acids in length. The family is found in association with pfam01805. There are two completely conserved residues (W and H) that may be functionally important. PRP21 is required for assembly of the prespliceosome and it interacts with U2 snRNP and/or pre-mRNA in the prespliceosome. This family also contains proteins similar to PRP21, such as the mammalian SF3a. SF3a also interacts with U2 snRNP from the prespliceosome, converting it to its active form.


Pssm-ID: 403444  Cd Length: 213  Bit Score: 242.34  E-value: 6.92e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  189 QLNDADKMISNAYKRAQYDKMNKVERKEKQKLIEQKQAHFASIDWQDFAIVGMIEFDAIDEVKELPAPLSRENLLYRSLE 268
Cdd:pfam12230   1 NLSDKQHILSRAYKRAEWRKHKEQEEQKKEEEEEEERIAFASIDWHDFVVVETIEFDDSDEVLELPKPLTLEQLIYRSLE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 149388721  269 SKSKDLEL-----PAPAPVSTAKTDEDKVKVATVSKPPAI-----KGMKIRAAGESRLKKSEVSTTSGVEPSIKCPITGK 338
Cdd:pfam12230  81 QKSKALEEadpvtDVEMEEDEEEEEPSKDKIAKKSKPSAVsdsppKNMKIRAAGEPRLKKRKNPTPPAQKKKAKCPITGQ 160

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|...
gi 149388721  339 MIPESKFDNHLKVLLRDPRYKQEQENFVRKNFSYASNLTTDQVYENIKRIVRK 391
Cdd:pfam12230 161 LIPEDEFDEHMRILLLDPRYKEQKDKYVQKNFKESSNLTTDDVYRNLKRLAKK 213
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 114-167 3.99e-12

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 60.61  E-value: 3.99e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 149388721  114 DIIKLTALYVAKNGDEYAKKLQNheiKVGNRAQFDFVNE-KHSLNKLFRQYIDQY 167
Cdd:pfam01805   1 DIIKKTAQFVARNGPEFEALLME---REERNPQFDFLFDpDDPLHAYYRWKLEEY 52
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 20-66 6.13e-11

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 57.21  E-value: 6.13e-11
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*...
gi 149388721    20 IDKTVGYVLKNGLSFEQRLLANNTEH-KFDFLTPENEYYNYYKWKIDG 66
Cdd:smart00648   4 IDKTAQFVARNGPEFEAKLMERERNNpQFDFLKPNDPYHAYYRKKLAE 51
Surp pfam01805
Surp module; This domain is also known as the SWAP domain. SWAP stands for ...
 20-65 7.24e-11

Surp module; This domain is also known as the SWAP domain. SWAP stands for Suppressor-of-White-APricot. It has been suggested that these domains may be RNA binding.


Pssm-ID: 460339 [Multi-domain]  Cd Length: 52  Bit Score: 57.14  E-value: 7.24e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 149388721   20 IDKTVGYVLKNGLSFEQRLLANN-TEHKFDFLTP-ENEYYNYYKWKID 65
Cdd:pfam01805   3 IKKTAQFVARNGPEFEALLMEREeRNPQFDFLFDpDDPLHAYYRWKLE 50
SWAP smart00648
Suppressor-of-White-APricot splicing regulator; domain present in regulators which are ...
 113-168 1.66e-10

Suppressor-of-White-APricot splicing regulator; domain present in regulators which are responsible for pre-mRNA splicing processes


Pssm-ID: 197818 [Multi-domain]  Cd Length: 54  Bit Score: 56.06  E-value: 1.66e-10
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 149388721   113 LDIIKLTALYVAKNGDEYAKKLQNheiKVGNRAQFDFVNEKHSLNKLFRQYIDQYS 168
Cdd:smart00648   1 LDIIDKTAQFVARNGPEFEAKLME---RERNNPQFDFLKPNDPYHAYYRKKLAEYR 53
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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