Conserved Protein Domain Family
NERD

?
pfam08378: NERD 
Nuclease-related domain
The nuclease-related domain (NERD) is found in a range of bacterial as well as archaeal and plant proteins. It has distant similarity to endonucleases (hence its name) and its predicted secondary structure is helix - sheet - sheet - sheet - sheet - weak sheet/long loop - helix - sheet - sheet. The majority of NERD-containing proteins are single-domain, but in several cases proteins containing NERD have additional domains which in 75% of cases are involved in DNA processing.
Statistics
?
PSSM-Id: 337030
View PSSM: pfam08378
Aligned: 357 rows
Threshold Bit Score: 28.9588
Threshold Setting Gi: 122601450
Created: 27-Mar-2017
Updated: 23-May-2017
Structure
?
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
?
Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81614140    67 IGEVAEKRINS-SLKa-----wSKQ------SKSIFIN----SSLYKYd-----DNKLFEIDSILITNRa-IIV-VEIKS 123
gi 122408988   49 RGKLAEQFVAQ-ELL----------------AWHSPEL----FYWAREa-----RGSSAEVDYLVVKAGk-IYP-VEVKS 100
gi 121723904  337 RGSLAEQFIGQeLLA-------LED------PFISSEL----YFWARDk-----TGSSSEIDYCITRKGr-IYP-VEVKS 392
gi 521295976   13 PVEASEQHFLG-RLQ----------------ADLQAHGvtatVFANFH------TAGSRQVDFLVITPG--HAChVELKA 67
gi 501580832   15 GGLYRELDVLE-RLQq-----sLPD------GYEIFHS----VAWQTAhhgegrHG---EIDLVVLAPSgnILL-VEVKA 74
gi 490444128  328 RGMAAEQIVAQ-ELKa-----lSNEvgkkqkFWVRAKR--------GS------SA---EVDFVYIYGGk-IIP-IEVKN 382
gi 490116991  350 EGMLAENVVAQ-MLR-------AAG------HQLFFYS----RTDSQN------RANTMEIDFLVPHGR--QICpIEVKS 403
gi 502737607   97 LGQEGEINFAK-ALQkqgllekLVT------FWS-VHN----LNL-ED------ERVDADIDCVIVSGSt-IWL-VDLKF 155
gi 491368908  223 KGAMFEQRTKH-LLQ----------------VCSQIDAkrlhIKITKE------KDLEREIDLAFVLDKt-LFL-FECKS 277
gi 119673964   51 DWREFEEFIRY-VFSe--------------fGYNVVSN----VRLNCG--------RSAEFDVVAWSRDv-AFV-VEAKK 101
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 81614140   124 MT-G---IIKGDgeVKDWKKVLgNQVFt---fY--NPILQNNRHIEHIIRII---------KKKI--------PIISLVI 177
gi 122408988  101 ---G-----AGG----------------------------TLRSLHLMLAKY-----------QN--------CPQGLVL 125
gi 121723904  393 ---G----KTGT-----------LRSL--------RVYMEEKKPPFAI-RFWegelsfhdtilsiplymtgeagrlidev 445
gi 521295976   68 YR-G---PIHGGr-NGQWSSTR-PDGTtqvieRspNPYEQTVRAQQSISDDMrafasgragTPRPsdgrqfytWFDSVLC 141
gi 501580832   75 ---GelsLVEGN-----LVKLY-GQRE-----H--DVARQTRVQHAAMLNRLae------aGLHA--------HVTGCVV 124
gi 490444128  383 ---G------HN-----------------------AHLKSIHQFMNETEHDL------------------------AVRI 406
gi 490116991  404 ---Gr--YQRHAs----------LDKF-----R--AKFGTNLGQSYILYGKDl--------LEKD--------GILHLPL 445
gi 502737607  156 YAsGn--VIYREadGLLYTIDS-ATGA-----QigRPKKMSPNMSYAE-ESFshkf--anlLKYY--------CLETRVV 216
gi 491368908  278 FNq---pYTVRE-----------HAKTn---kKikEAIKQLNKNADYFEENIsi------tLKQLglseeisiEKVQRVL 334
gi 119673964  102 WK-Gg---------GGKWEE---------------IACKHLKKVKMCISKLL---------VFAP--------FVVPLVI 139

                  ..
gi 81614140   178 FS 179
gi 122408988  126 YS 127
gi 121723904  446 ye 447
gi 521295976  142 VY 143
gi 501580832  125 LP 126
gi 490444128  407 WS 408
gi 490116991  446 YM 447
gi 502737607  217 LM 218
gi 491368908  335 LT 336
gi 119673964  140 SS 141
| Disclaimer | Privacy statement | Accessibility |
NCBI Home NCBI Search NCBI SiteMap