3RAB,1Z0F,1G17,2F7S,1KY2,1WMS,2EW1,1D5C,2HUP,2P5S,1ZBD,1N6H,1OIW,1X3S,1Z0A,1UKV,1YZT,1Z06,1Z2A,1Z0K


Conserved Protein Domain Family
Rab

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cd00154: Rab 
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Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)
Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. 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 mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. 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. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible.
Statistics
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PSSM-Id: 206640
View PSSM: cd00154
Aligned: 314 rows
Threshold Bit Score: 97.9118
Threshold Setting Gi: 71896811
Created: 1-Nov-2000
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
  next features
Conserved site includes 16 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:3RAB: Rattus norvegicus Rab3a binds GppNHp, a GTP analog and Mg2+, defined using 3.5 A contacts
    View structure with Cn3D
  • Structure:1ZBD: Rattus norvegicus Rab3a binds GTP and Mg2+, defined using 3.5 A contacts
    View structure with Cn3D
  • Comment:the Thr residues coordinate Mg2+

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1               #######            #         #                          #               
3RAB_A        6 FKILIIGNSSVGKTSFLFRYA---DDSFtpa---fvsTVGIDFKVKTIyrn-dkRIKLQIWDTAGq-------------- 64
gi 67479927   6 ISVGLCGDSGVGKTGIFKRYI---TGKYtgt---ekaSVSCDVSCKKLnie-geAYNLQLWDTAGq-------------- 64
gi 56790092   8 ITIALCGDASVGKTGIFKRFI---KDQFskn---eksTISCDVACKKMnvd-grSYNIQLWDTAGq-------------- 66
gi 56790094   6 ISIALSGDAFVGKTCFFKRFS---SGEFnpn---tasSIGCDVICKKLild-gkQYNVQLWDTAGq-------------- 64
gi 56790176  11 ISIAFCGNSAVGKTALFTRIT---KGIFneh---leaSISADVFTKQVnvd-gqNHNVALWDTAGq-------------- 69
gi 74833862   8 LSIAIIGDSGVGKSTFLSMFM---TNQFvl-----rhNDKITIGQKEIlig-qkPVQIKLIDISGk-------------- 64
gi 56790090   6 ISICLCGDPFVGKTCFFQRFS---NGEFnan---tktSIGSDVTCKKLqld-gkTYNVQLWDTAGq-------------- 64
gi 65304280  11 FSLVIISSNSFSSAIVALENLaycSDLLtiplrivtsLLSVWILTLFVkd---kRVKLQIWDTAGq-------------- 73
gi 74831469   9 VEFLVFGQSYIGKTSFLKSAK---GEKFden---yypNTGIELIIKQIkir-deIQKLYLWEFPGf-------------- 67
gi 74831233  18 TGCIHQLFLGVGKSCFLSQYV---KGKFiqe---ydpTIGLEFESKSIefndgvVVQNQLWDTVTftilislealnlwqy 91
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                  ## #                 
3RAB_A       65 --ERYRtITTAYYrg--aMGFILMYDITnEESFNAVQDWSTQIKTysw--dnAQVLLVGNKCDme-------------de 125
gi 67479927  65 --EVFRsITASYFrn--rHVMCFCFDITkKASFSSISGWLREFQQnqnpsftTKLILVGCKSDle-------------gn 127
gi 56790092  67 --EVFRaTTSTYFrn--rHVMLFCYDITkKESFNHVEDWIKEFEQvqresnkTIKFLIGCKKDen-------------an 129
gi 56790094  65 --EMFRsTTATYFrn--rHCILFMFDVTnSESFTHIEDWMEVFYEiqnedkkTLLVLVGNKNDmi-------------ae 127
gi 56790176  70 --EKFRsTTKSYLrg--lHGVLFCFDITkKETFNCIDMWIQEYEQaqtlkdlAARYLIGCKGDla-------------sk 132
gi 74833862  65 --EPFRsMAWVHYrt--cIGIILIFDLSsRDSYENLKKWYEEIQQyvd-qekLVIRLVGNKCDklfyddmdqdkeggndr 139
gi 56790090  65 --EIFRsTTTTYFrn--rHCILFTYDITkRETLEHVEDWMKEFCQvqpdtskTLTILIGCKNDle-------------eq 127
gi 65304280  74 --ERFRtITSTYYrg--aDGIIMVYDITdKSSFEHINDWLSEVNKyss--edTCKLLLGNKCDme-------------dn 134
gi 74831469  68 --SNFKqIARRYYkr--aQGLILLYDITdHESFINLENYLEEAIQhhd--slLSIILIGNKVDld-------------sk 128
gi 74831233  92 rkHFVKsNQSSLYtqssaAAAIVFYKINsEASFKSLQNWINILKQvss--dkIQIVIVATNKDle-------------dq 156
                       170       180       190       200
                ....*....|....*....|....*....|....*....|....*...
Feature 1                                     ###               
3RAB_A      126 RVVSSERGRQLadh--------lgfEFFEASAKd-NINVKQTFERLVD 164
gi 67479927 128 RQITTTEAEQFaqe--------nkmSYYECSAKt-NVGIDQLFSHAIS 166
gi 56790092 130 RQVTSNEGKFFakr--------nnmTHFECSALn-GEGVTEIFGAAIA 168
gi 56790094 128 RQVSPEDAKDFaks--------hniNYFECSAKe-NINIDNIIEFVIR 166
gi 56790176 133 REVSREEAESYakt--------knmTYLECSAKt-GDNVDTLLVSVIR 171
gi 74833862 140 HYIQFEEGEQFaathqmq-ysqtssSVFSLAQDenYMSIPSIISKFTQ 186
gi 56790090 128 RQITFEEGERFast--------hqiPFFECSAKt-NNNIQEIIEFVVR 166
gi 65304280 135 RDVSLTDVQRLsev--------ievPAMDVSAKt-GHNIDKAFYSITE 173
gi 74831469 129 RQVSIEEAEDFaqk--------kgfPFFEISAKt-NHNIDLVLEYCLS 167
gi 74831233 157 RYTIISQFRQVqtsqgrdladsleaKFYEISNHd-KDQIDGIVNSISY 203

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