1YZT


Conserved Protein Domain Family
Rab21

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cd04123: Rab21 
Click on image for an interactive view with Cn3D
Rab GTPase family 21 (Rab21)
The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Statistics
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PSSM-Id: 133323
View PSSM: cd04123
Aligned: 21 rows
Threshold Bit Score: 254.456
Threshold Setting Gi: 74833848
Created: 11-Jan-2006
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
  next features
Conserved site includes 14 residues -Click on image for an interactive view with Cn3D
Feature 1:GTP/Mg2+ binding site [chemical binding site]
Evidence:
  • Comment:The active conformation of Rab is stabilized by interations between the gamma phosphate of GTP and two critically conserved residues, Thr in switch I and Gly in switch II
  • Structure:1YZT: Human Rab21 binds GppNHp, a GTP analog and Mg2+, defined using 3.5 A contacts
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1               #  ####         #     ##                                                
1YZT_B       21 FKVVLLGEGCVGKTSLVLRYCENKFndkhITTLQASFLTKKLnig---------gkRVNLAIWDTAGQERFHALGPIYYR 91
gi 62736290   3 YKVVLLGEGRVGKSSIGNKWQSNTFdpqrRSTIAAAFFQKTVicq---------gkNVDIQLWDTAGQEEYHSLAPIYYK 73
gi 62736292   3 YKVVFLGEGRVGKTSIGKRWVDGFFdpsmRSTISAAFFQKTVnag---------skKINIQLWDTAGQEEYHSLAPIYYK 73
gi 70832077   8 YKVVLLGEGRVGKTSLISRFVNDTFdaqqRSTTQASMYSSVNvpll------nsdkTVNLNVWDTAGQERFHALGPIYYR 81
gi 70874440   5 YKVVLLGEGRVGKTSLVSRFAHDAFdenqSSTIQASMYTSADvplld-----gsgaKVKINVWDTAGQERFHALGPIYYR 79
gi 74831146  11 YKVVTLGEGRVGKTSIITRFFDNSFseqtQETSDGYCKEKTIqtk---------kgPIDLAVWDTAGQEKYHSLAPLYYR 81
gi 74833848  11 YKVVFLGENKVGKTSIITRYFYNTFsektEVTVCDFCKYKTIqtk---------ngSIELAVWDTAGQEKYHALAPIYYR 81
gi 68223897  10 FKVVLLGEGRVGKTSLISRYVHNAFdekeASTVQASMHSSKAvpindassapgairEVDLALWDTAGQERFHALAPMYYR 89
gi 71423948   8 MKIVMLGEGRVGKTSLLQRFVSDSFeeecESTTKASMYANVTvtvs-------dgaKAKLSIWDTAGQERYHALGPIYYR 80
gi 62736296   8 NKVVLVGTTHTGKTSIVQRYVNGQFminsVSSMQAAFFQKNVmig---------gkEQTLEIWDTAGQERFRSLTPMYYR 78
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                 ## #                           ###    
1YZT_B       92 DSNGAILVYDITDEDSFQKVKNWVKELRKMLGn-eICLCIVGNKIDle-keRHVSIQEAESYAESVGAKHYHTSAKQNKG 169
gi 62736290  74 DAQAALLVYSVIDSTSFERMMQWKNELVNTRGe-nIKLIIAANKIDmv-sqRVITPQQGLDFANKVGCQIFEVSAKTGEG 151
gi 62736292  74 DAVAAILVYSVTDSKSFEKMQQWRKELVSSRGd-nIKIILCGNKIDlp-sqRTVQYDQAEAIAKQYGCPYFEVSAKTGQG 151
gi 70832077  82 NANGAILVYDVTDADTLEKVRLWIRELRAVVGd-qIQLVVCANKSDle-qeREVSEEKGRRFAKDHGAQHLSTSARTGMN 159
gi 70874440  80 NADGALLVYDITDADTLEKVRLWIRELRAVVGn-qIQLVICGNKSDre-eeRDISKEKAEEFAKSHEALHFVTSAKTGEN 157
gi 74831146  82 NSDAAIIVYDITVKETLQKGRQWIQELKQMAEndnMLLVIVGNKCDmh-iqKDVEQSQIDELCNQYNAKHFLVSAKSGKG 160
gi 74833848  82 KADAAIIVYNITVQQTFQNVRLWIQELQQFSQnanIIPVIVGNKDDlh-mhRAVEQSQVDELCNQYNAKHFQVSAKSDKG 160
gi 68223897  90 NADGAIIVYDVTDADTLRKVRTWAKELYAVVGegkIQLVLCGNKADtplaeREVSEGEGAAMAAELGASHFFASAKTGQN 169
gi 71423948  81 DAQGAILVYDITDYESFLKVKIWLKELQQVVGnqnISVVVVGNKIDle-rqRSVTVKEAEEWANQQNAKHYNVSAKLSIH 159
gi 62736296  79 DARVAIVVFDITDANSFSKAKQWINELKSSRGd-sISLVLVGNKSDle-fiRVVQMSEAKQYAKLLDIPYFETSAKTGVN 156
                       170
                ....*....|...
Feature 1                    
1YZT_B      170 IEELFLDLCKRMI 182
gi 62736290 152 IDMLFQALAKTLL 164
gi 62736292 152 IETMFLRLGEILS 164
gi 70832077 160 VAEAFQTLATAIA 172
gi 70874440 158 VAVAFQALATAVA 170
gi 74831146 161 IPEIFDHLANELK 173
gi 74833848 161 ITEIFDYIADGKQ 173
gi 68223897 170 VAEVFSAMATQVA 182
gi 71423948 160 ISEPFNGIAKSVI 172
gi 62736296 157 IEEVFIQVAQDVT 169

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