Psyllid ID: psy2300

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-
Protein Sequence
MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEEEEEcccccHHHHHHHccccccccccccccccccEEEEEEEccEEEEEEEEEcccccHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccEEEEEEEEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHcccccccEEEEEEEcccHHHHHcHHHHHHHHHHHcccccEEEEEEEccccHHHccccHHHHHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHccHHHcccccccccccccccEccccccccccccccccc
Coil and Loop (DISEMBL)
magvgetkwqkdaadQNFDYMFKLLIIgnssvgktsflfryaddsftsAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGnkcdmedeRVISFERGKHLAESLGVeffetsakdnvnvkGVFERLVDIICDKmsesldsdpnlvagpkgtrlteqpqrnnpinpncnc
Flexible Loop (DISEMBL)
magvgetkwqkdaaDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVgidfkvktvfrhdkrvklqiwdtagqeryrTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGveffetsakdnvnvkGVFERLVDIICDKMsesldsdpnlvAGPKGtrlteqpqrnnpinpncnc
Low Complexity Region (SEG)
MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC
Disordered region (IsUnstruct)
*************ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK************************************
Disordered Region (DISOPRED)
*******************YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII**********************************PNCNC
Disordered Region (DISEMBL)
**********KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC
Disordered Region (DISPRO)
**************DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	221	2.2.26 [Sep-21-2011]
P25228	220	Ras-related protein Rab-3	yes	N/A	0.990	0.995	0.878	1e-110
Q96E17	227	Ras-related protein Rab-3	yes	N/A	0.986	0.960	0.797	1e-102
P10949	227	Ras-related protein Rab-3	yes	N/A	0.986	0.960	0.797	1e-102
P62824	227	Ras-related protein Rab-3	yes	N/A	0.986	0.960	0.783	1e-101
P62823	227	Ras-related protein Rab-3	yes	N/A	0.986	0.960	0.783	1e-101
P63012	220	Ras-related protein Rab-3	no	N/A	0.986	0.990	0.739	1e-95
Q06AU3	220	Ras-related protein Rab-3	no	N/A	0.986	0.990	0.739	1e-95
P63011	220	Ras-related protein Rab-3	no	N/A	0.986	0.990	0.739	1e-95
P20337	219	Ras-related protein Rab-3	no	N/A	0.986	0.995	0.747	2e-95
P11023	220	Ras-related protein Rab-3	no	N/A	0.986	0.990	0.739	2e-95

>sp|P25228|RAB3_DROME Ras-related protein Rab-3 OS=Drosophila melanogaster GN=Rab3 PE=1 SV=1

 Score =  399 bits (1024), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 195/222 (87%), Positives = 205/222 (92%), Gaps = 3/222 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MASGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query: 181 IICDKMSESLDSDPNLV-AGPKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLD+DP LV  G KG RLT+QPQ   P N NCNC
Sbjct: 181 IICDKMSESLDADPTLVGGGQKGQRLTDQPQ-GTP-NANCNC 220

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.
Drosophila melanogaster (taxid: 7227)

>sp|Q96E17|RAB3C_HUMAN Ras-related protein Rab-3C OS=Homo sapiens GN=RAB3C PE=2 SV=1

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 177/222 (79%), Positives = 195/222 (87%), Gaps = 4/222 (1%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct: 9   MASAQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 69  VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct: 129 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query: 180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct: 189 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPNCAC 227

Protein transport. Probably involved in vesicular traffic.

Homo sapiens (taxid: 9606)

>sp|P10949|RAB3C_BOVIN Ras-related protein Rab-3C OS=Bos taurus GN=RAB3C PE=2 SV=3

 Score =  371 bits (953), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 177/222 (79%), Positives = 195/222 (87%), Gaps = 4/222 (1%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct: 9   MASAQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 69  VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct: 129 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query: 180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct: 189 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPNCGC 227

Protein transport. Probably involved in vesicular traffic.

Bos taurus (taxid: 9913)

>sp|P62824|RAB3C_RAT Ras-related protein Rab-3C OS=Rattus norvegicus GN=Rab3c PE=1 SV=1

 Score =  365 bits (938), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/222 (78%), Positives = 193/222 (86%), Gaps = 4/222 (1%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct: 9   MASAQDARFGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 69  VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVIL GNKCDMEDERV+S ERG+ L E LG EFFETSAKDN+NVK  FERLV
Sbjct: 129 KTYSWDNAQVILAGNKCDMEDERVVSTERGQRLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query: 180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct: 189 DIICDKMSESLETDPAITAAKQSTRLKETPP---PPQPNCGC 227

Protein transport. Probably involved in vesicular traffic.

Rattus norvegicus (taxid: 10116)

>sp|P62823|RAB3C_MOUSE Ras-related protein Rab-3C OS=Mus musculus GN=Rab3c PE=1 SV=1

 Score =  365 bits (938), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/222 (78%), Positives = 193/222 (86%), Gaps = 4/222 (1%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct: 9   MASAQDARFGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 69  VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVIL GNKCDMEDERV+S ERG+ L E LG EFFETSAKDN+NVK  FERLV
Sbjct: 129 KTYSWDNAQVILAGNKCDMEDERVVSTERGQRLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query: 180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct: 189 DIICDKMSESLETDPAITAAKQSTRLKETPP---PPQPNCGC 227

Protein transport. Probably involved in vesicular traffic.

Mus musculus (taxid: 10090)

>sp|P63012|RAB3A_RAT Ras-related protein Rab-3A OS=Rattus norvegicus GN=Rab3a PE=1 SV=1

 Score =  348 bits (894), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 165/223 (73%), Positives = 194/223 (86%), Gaps = 5/223 (2%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   ++++ QK+++DQNFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFK
Sbjct: 1   MASATDSRYGQKESSDQNFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKT++R+DKR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 61  VKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQV+LVGNKCDMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLV
Sbjct: 121 KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 180

Query: 180 DIICDKMSESLD-SDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           D+IC+KMSESLD +DP +    +G +LT+Q     P + +C C
Sbjct: 181 DVICEKMSESLDTADPAVTGAKQGPQLTDQ---QAPPHQDCAC 220

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal (By similarity). Interacts with RAB3IP.

Rattus norvegicus (taxid: 10116)

>sp|Q06AU3|RAB3A_PIG Ras-related protein Rab-3A OS=Sus scrofa GN=RAB3A PE=2 SV=1

 Score =  348 bits (894), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 165/223 (73%), Positives = 194/223 (86%), Gaps = 5/223 (2%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   ++++ QK+++DQNFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFK
Sbjct: 1   MASATDSRYGQKESSDQNFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKT++R+DKR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 61  VKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQV+LVGNKCDMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLV
Sbjct: 121 KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 180

Query: 180 DIICDKMSESLD-SDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           D+IC+KMSESLD +DP +    +G +LT+Q     P + +C C
Sbjct: 181 DVICEKMSESLDTADPAVTGAKQGPQLTDQ---QAPPHQDCAC 220

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Sus scrofa (taxid: 9823)

>sp|P63011|RAB3A_MOUSE Ras-related protein Rab-3A OS=Mus musculus GN=Rab3a PE=1 SV=1

 Score =  348 bits (894), Expect = 1e-95,   Method: Compositional matrix adjust.
 Identities = 165/223 (73%), Positives = 194/223 (86%), Gaps = 5/223 (2%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   ++++ QK+++DQNFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFK
Sbjct: 1   MASATDSRYGQKESSDQNFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKT++R+DKR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 61  VKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQV+LVGNKCDMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLV
Sbjct: 121 KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 180

Query: 180 DIICDKMSESLD-SDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           D+IC+KMSESLD +DP +    +G +LT+Q     P + +C C
Sbjct: 181 DVICEKMSESLDTADPAVTGAKQGPQLTDQ---QAPPHQDCAC 220

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Mus musculus (taxid: 10090)

>sp|P20337|RAB3B_HUMAN Ras-related protein Rab-3B OS=Homo sapiens GN=RAB3B PE=1 SV=2

 Score =  348 bits (893), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 166/222 (74%), Positives = 192/222 (86%), Gaps = 4/222 (1%)

Query: 1   MAGVGETKWQ-KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA V + K   KDA+DQNFDYMFKLLIIGNSSVGKTSFLFRYADD+FT AFVSTVGIDFK
Sbjct: 1   MASVTDGKTGVKDASDQNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTV+RH+KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 61  VKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVILVGNKCDME+ERV+  E+G+ LAE LG +FFE SAK+N++V+  FERLV
Sbjct: 121 KTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLV 180

Query: 180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           D ICDKMS+SLD+DP+++   K TRL++ P     +  NC+C
Sbjct: 181 DAICDKMSDSLDTDPSMLGSSKNTRLSDTPPL---LQQNCSC 219

Protein transport. Probably involved in vesicular traffic.

Homo sapiens (taxid: 9606)

>sp|P11023|RAB3A_BOVIN Ras-related protein Rab-3A OS=Bos taurus GN=RAB3A PE=1 SV=3

 Score =  348 bits (893), Expect = 2e-95,   Method: Compositional matrix adjust.
 Identities = 165/223 (73%), Positives = 193/223 (86%), Gaps = 5/223 (2%)

Query: 1   MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           MA   + ++ QK+++DQNFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFK
Sbjct: 1   MASATDARYGQKESSDQNFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKT++R+DKR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct: 61  VKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQV+LVGNKCDMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLV
Sbjct: 121 KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLV 180

Query: 180 DIICDKMSESLD-SDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           D+IC+KMSESLD +DP +    +G +LT+Q     P + +C C
Sbjct: 181 DVICEKMSESLDTADPAVTGAKQGPQLTDQ---QAPPHQDCAC 220

Involved in exocytosis by regulating a late step in synaptic vesicle fusion. Could play a role in neurotransmitter release by regulating membrane flow in the nerve terminal.

Bos taurus (taxid: 9913)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	221
157112793	219	ras-related protein Rab-3C, putative [Ae	0.981	0.990	0.895	1e-111
242004797	255	RAB 3 and, putative [Pediculus humanus c	0.990	0.858	0.883	1e-111
31210411	221	AGAP005255-PA [Anopheles gambiae str. PE	0.995	0.995	0.887	1e-111
170049010	219	GTP-binding protein Rab-3D [Culex quinqu	0.981	0.990	0.890	1e-110
193664606	218	PREDICTED: ras-related protein Rab-3-lik	0.986	1.0	0.882	1e-110
195120790	220	GI20173 [Drosophila mojavensis] gi|19390	0.990	0.995	0.882	1e-110
195429579	220	GK19661 [Drosophila willistoni] gi|19415	0.990	0.995	0.882	1e-109
112983326	218	ras-related GTP-binding protein Rab3 [Bo	0.972	0.986	0.871	1e-109
125811091	220	GA20450 [Drosophila pseudoobscura pseudo	0.990	0.995	0.878	1e-109
17737457	220	Rab3 [Drosophila melanogaster] gi|194884	0.990	0.995	0.878	1e-109

>gi|157112793|ref|XP_001651875.1| ras-related protein Rab-3C, putative [Aedes aegypti] gi|108877951|gb|EAT42176.1| AAEL006267-PA [Aedes aegypti]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 197/220 (89%), Positives = 205/220 (93%), Gaps = 3/220 (1%)

Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 62
             G+ KWQKDA+DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT
Sbjct: 2   AAGDPKWQKDASDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 61

Query: 63  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY 122
           VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIKTY
Sbjct: 62  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIKTY 121

Query: 123 SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           SWDNAQVILVGNKCDMEDERVISFERGK LA+ LGVEFFETSAK+NVNVK VFERLVDII
Sbjct: 122 SWDNAQVILVGNKCDMEDERVISFERGKQLADQLGVEFFETSAKENVNVKNVFERLVDII 181

Query: 183 CDKMSESLDSDPNLVA-GPKGTRLTEQPQRNNPINPNCNC 221
           CDKMSESLDSDP LVA GPKG RLT+QPQ   P N NCNC
Sbjct: 182 CDKMSESLDSDPTLVAGGPKGQRLTDQPQ--GPPNANCNC 219

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242004797|ref|XP_002423263.1| RAB 3 and, putative [Pediculus humanus corporis] gi|212506265|gb|EEB10525.1| RAB 3 and, putative [Pediculus humanus corporis]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 197/223 (88%), Positives = 206/223 (92%), Gaps = 4/223 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MAG  + KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 35  MAGEQDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 94

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIK
Sbjct: 95  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIK 154

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMEDERVISFERGK L+E LG+EFFETSAK+N+NVK VFERLVD
Sbjct: 155 TYSWDNAQVILVGNKCDMEDERVISFERGKQLSEQLGIEFFETSAKENINVKAVFERLVD 214

Query: 181 IICDKMSESLDSDPNLVAGP--KGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLDSDP L+AG   KGTRLTE PQ   P N NCNC
Sbjct: 215 IICDKMSESLDSDPTLMAGGANKGTRLTEAPQ--GPHNGNCNC 255

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|31210411|ref|XP_314172.1| AGAP005255-PA [Anopheles gambiae str. PEST] gi|30176728|gb|EAA09493.2| AGAP005255-PA [Anopheles gambiae str. PEST]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 197/222 (88%), Positives = 207/222 (93%), Gaps = 2/222 (0%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MAG G+ KWQKDA+DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MAGGGDPKWQKDASDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMEDERVISFERGK LA+ LGVEFFETSAK+NV+V  VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKQLADQLGVEFFETSAKENVHVTDVFERLVD 180

Query: 181 IICDKMSESLDSDPNLVA-GPKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLDSDP LVA GPKG RLT+QP +  P N NCNC
Sbjct: 181 IICDKMSESLDSDPTLVAGGPKGQRLTDQPGQGPP-NANCNC 221

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170049010|ref|XP_001853751.1| GTP-binding protein Rab-3D [Culex quinquefasciatus] gi|167870968|gb|EDS34351.1| GTP-binding protein Rab-3D [Culex quinquefasciatus]

 Score =  403 bits (1036), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 196/220 (89%), Positives = 204/220 (92%), Gaps = 3/220 (1%)

Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 62
             G+ KWQKDA+DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT
Sbjct: 2   AAGDPKWQKDASDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 61

Query: 63  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY 122
           VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIKTY
Sbjct: 62  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIKTY 121

Query: 123 SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           SWDNAQVILVGNKCDMEDERVISFERGK LA+ LGVEFFETSAK+NVNVK VFERLVDII
Sbjct: 122 SWDNAQVILVGNKCDMEDERVISFERGKQLADQLGVEFFETSAKENVNVKNVFERLVDII 181

Query: 183 CDKMSESLDSDPNLVA-GPKGTRLTEQPQRNNPINPNCNC 221
           CDKMSESLDSDP LVA G KG RLT+QPQ   P N NCNC
Sbjct: 182 CDKMSESLDSDPALVAGGQKGQRLTDQPQ--GPPNANCNC 219

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|193664606|ref|XP_001944695.1| PREDICTED: ras-related protein Rab-3-like [Acyrthosiphon pisum]

 Score =  402 bits (1034), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 195/221 (88%), Positives = 204/221 (92%), Gaps = 3/221 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MAG  + KWQK+ +DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MAG-QDGKWQKEGSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 59

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIK
Sbjct: 60  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIK 119

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDME ERVIS+ERGK LA+ L +EFFETSAKDN NVK VFERLVD
Sbjct: 120 TYSWDNAQVILVGNKCDMEHERVISYERGKTLADELNIEFFETSAKDNHNVKAVFERLVD 179

Query: 181 IICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLDSDP LVAG KGTRLTEQPQ   P NPNCNC
Sbjct: 180 IICDKMSESLDSDPTLVAGAKGTRLTEQPQ--GPNNPNCNC 218

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195120790|ref|XP_002004904.1| GI20173 [Drosophila mojavensis] gi|193909972|gb|EDW08839.1| GI20173 [Drosophila mojavensis]

 Score =  401 bits (1031), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 196/222 (88%), Positives = 206/222 (92%), Gaps = 3/222 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MAG G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MAGGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query: 181 IICDKMSESLDSDPNLVAG-PKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLD+DP LV G  KG RLT+QPQ   P N NCNC
Sbjct: 181 IICDKMSESLDADPTLVGGNQKGQRLTDQPQ-GTP-NANCNC 220

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195429579|ref|XP_002062835.1| GK19661 [Drosophila willistoni] gi|194158920|gb|EDW73821.1| GK19661 [Drosophila willistoni]

 Score =  401 bits (1031), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 196/222 (88%), Positives = 206/222 (92%), Gaps = 3/222 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MAG G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MAGGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query: 181 IICDKMSESLDSDPNLV-AGPKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLD+DP LV  G KG RLT+QPQ   P N NCNC
Sbjct: 181 IICDKMSESLDADPTLVGGGQKGQRLTDQPQ-GTP-NANCNC 220

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|112983326|ref|NP_001037620.1| ras-related GTP-binding protein Rab3 [Bombyx mori] gi|102993253|gb|ABF71469.1| ras-related GTP-binding protein Rab3 [Bombyx mori]

 Score =  401 bits (1030), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 190/218 (87%), Positives = 205/218 (94%), Gaps = 3/218 (1%)

Query: 5   GETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF 64
           GE KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF
Sbjct: 3   GEAKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF 62

Query: 65  RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
           RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF S+QDW+TQIKTYSW
Sbjct: 63  RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWVTQIKTYSW 122

Query: 125 DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           DNAQVILVGNKCDME+ERV+S ERG+ LA+ LGVEF+ETSAK+N+NVK VFERLVDIICD
Sbjct: 123 DNAQVILVGNKCDMEEERVVSAERGRQLADQLGVEFYETSAKENINVKAVFERLVDIICD 182

Query: 185 KMSESLDSDPNLVA-GPKGTRLTEQPQRNNPINPNCNC 221
           KMSESLDS+P ++A G +G RLTEQPQ +N  NPNCNC
Sbjct: 183 KMSESLDSEPAMLAGGARGQRLTEQPQGSN--NPNCNC 218

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125811091|ref|XP_001361745.1| GA20450 [Drosophila pseudoobscura pseudoobscura] gi|194758000|ref|XP_001961250.1| GF11093 [Drosophila ananassae] gi|195153505|ref|XP_002017666.1| GL17187 [Drosophila persimilis] gi|54636921|gb|EAL26324.1| GA20450 [Drosophila pseudoobscura pseudoobscura] gi|190622548|gb|EDV38072.1| GF11093 [Drosophila ananassae] gi|194113462|gb|EDW35505.1| GL17187 [Drosophila persimilis]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 195/222 (87%), Positives = 205/222 (92%), Gaps = 3/222 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MASGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query: 181 IICDKMSESLDSDPNLVAGP-KGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLD+DP LV G  KG RLT+QPQ   P N NCNC
Sbjct: 181 IICDKMSESLDADPTLVGGAQKGQRLTDQPQ-GTP-NANCNC 220

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17737457|ref|NP_523687.1| Rab3 [Drosophila melanogaster] gi|194884193|ref|XP_001976180.1| GG22724 [Drosophila erecta] gi|195333207|ref|XP_002033283.1| GM20500 [Drosophila sechellia] gi|195483658|ref|XP_002090378.1| GE13081 [Drosophila yakuba] gi|131800|sp|P25228.1|RAB3_DROME RecName: Full=Ras-related protein Rab-3 gi|158193|gb|AAA28843.1| rab3 [Drosophila melanogaster] gi|7303712|gb|AAF58762.1| Rab3 [Drosophila melanogaster] gi|16648446|gb|AAL25488.1| LP05860p [Drosophila melanogaster] gi|40788408|dbj|BAD07037.1| Rab3 [Drosophila melanogaster] gi|190659367|gb|EDV56580.1| GG22724 [Drosophila erecta] gi|194125253|gb|EDW47296.1| GM20500 [Drosophila sechellia] gi|194176479|gb|EDW90090.1| GE13081 [Drosophila yakuba] gi|220947366|gb|ACL86226.1| Rab3-PA [synthetic construct] gi|220956828|gb|ACL90957.1| Rab3-PA [synthetic construct]

 Score =  399 bits (1024), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 195/222 (87%), Positives = 205/222 (92%), Gaps = 3/222 (1%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct: 1   MASGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct: 121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query: 181 IICDKMSESLDSDPNLV-AGPKGTRLTEQPQRNNPINPNCNC 221
           IICDKMSESLD+DP LV  G KG RLT+QPQ   P N NCNC
Sbjct: 181 IICDKMSESLDADPTLVGGGQKGQRLTDQPQ-GTP-NANCNC 220

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	221
FB|FBgn0005586	220	Rab3 "Rab3" [Drosophila melano	0.990	0.995	0.878	2e-102
UNIPROTKB|E2QSW2	225	RAB3C "Uncharacterized protein	0.986	0.968	0.797	1.6e-93
UNIPROTKB|E2RC93	227	RAB3C "Uncharacterized protein	0.986	0.960	0.797	1.6e-93
UNIPROTKB|P10949	227	RAB3C "Ras-related protein Rab	0.986	0.960	0.797	2.1e-93
UNIPROTKB|F1SLJ0	225	RAB3C "Uncharacterized protein	0.986	0.968	0.797	2.1e-93
UNIPROTKB|Q96E17	227	RAB3C "Ras-related protein Rab	0.986	0.960	0.797	3.4e-93
UNIPROTKB|E1C105	212	RAB3C "Uncharacterized protein	0.945	0.985	0.823	5e-92
MGI|MGI:1914545	227	Rab3c "RAB3C, member RAS oncog	0.986	0.960	0.783	6.3e-92
RGD|620923	227	Rab3c "RAB3C, member RAS oncog	0.986	0.960	0.783	6.3e-92
UNIPROTKB|E1BF18	218	RAB3C "Ras-related protein Rab	0.981	0.995	0.779	1.9e-90

FB|FBgn0005586 Rab3 "Rab3" [Drosophila melanogaster (taxid:7227)]

 Score = 1015 (362.4 bits), Expect = 2.0e-102, P = 2.0e-102
 Identities = 195/222 (87%), Positives = 205/222 (92%)

Query:     1 MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
             MA  G+ KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV
Sbjct:     1 MASGGDPKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60

Query:    61 KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
             KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE+SF S+QDW+TQIK
Sbjct:    61 KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEDSFNSVQDWVTQIK 120

Query:   121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
             TYSWDNAQVILVGNKCDMED+RVISFERG+ LA+ LGVEFFETSAK+NVNVK VFERLVD
Sbjct:   121 TYSWDNAQVILVGNKCDMEDQRVISFERGRQLADQLGVEFFETSAKENVNVKAVFERLVD 180

Query:   181 IICDKMSESLDSDPNLVAG-PKGTRLTEQPQRNNPINPNCNC 221
             IICDKMSESLD+DP LV G  KG RLT+QPQ   P N NCNC
Sbjct:   181 IICDKMSESLDADPTLVGGGQKGQRLTDQPQ-GTP-NANCNC 220

GO:0003924 "GTPase activity" evidence=ISS;NAS

GO:0015031 "protein transport" evidence=IEA;NAS

GO:0008021 "synaptic vesicle" evidence=IDA;NAS

GO:0016192 "vesicle-mediated transport" evidence=NAS

GO:0007269 "neurotransmitter secretion" evidence=NAS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

GO:0048786 "presynaptic active zone" evidence=IDA

GO:0048790 "maintenance of presynaptic active zone structure" evidence=IMP

UNIPROTKB|E2QSW2 RAB3C "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 931 (332.8 bits), Expect = 1.6e-93, P = 1.6e-93
 Identities = 177/222 (79%), Positives = 195/222 (87%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     7 MASSQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 66

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    67 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 126

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   127 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 186

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   187 DIICDKMSESLETDPAITAAKQNTRLKESPP---PAQPNCGC 225

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|E2RC93 RAB3C "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 931 (332.8 bits), Expect = 1.6e-93, P = 1.6e-93
 Identities = 177/222 (79%), Positives = 195/222 (87%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     9 MASSQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    69 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   129 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   189 DIICDKMSESLETDPAITAAKQNTRLKESPP---PAQPNCGC 227

GO:0017157 "regulation of exocytosis" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|P10949 RAB3C "Ras-related protein Rab-3C" [Bos taurus (taxid:9913)]

 Score = 930 (332.4 bits), Expect = 2.1e-93, P = 2.1e-93
 Identities = 177/222 (79%), Positives = 195/222 (87%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     9 MASAQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    69 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   129 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   189 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPNCGC 227

GO:0005886 "plasma membrane" evidence=IEA

GO:0017157 "regulation of exocytosis" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|F1SLJ0 RAB3C "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 930 (332.4 bits), Expect = 2.1e-93, P = 2.1e-93
 Identities = 177/222 (79%), Positives = 196/222 (88%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   +T++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     7 MASAQDTRYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 66

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    67 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 126

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   127 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 186

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  P+C C
Sbjct:   187 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPSCGC 225

GO:0017157 "regulation of exocytosis" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

UNIPROTKB|Q96E17 RAB3C "Ras-related protein Rab-3C" [Homo sapiens (taxid:9606)]

 Score = 928 (331.7 bits), Expect = 3.4e-93, P = 3.4e-93
 Identities = 177/222 (79%), Positives = 195/222 (87%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     9 MASAQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    69 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   129 KTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   189 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPNCAC 227

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IEA

GO:0017157 "regulation of exocytosis" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

UNIPROTKB|E1C105 RAB3C "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 917 (327.9 bits), Expect = 5.0e-92, P = 5.0e-92
 Identities = 173/210 (82%), Positives = 192/210 (91%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   ++++ QKD +DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     1 MASAQDSRYGQKDTSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 60

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    61 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 120

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVILVGNKCDMEDERVI  ERGKHLAE LG EFFETSAKDN+NVK  FERLV
Sbjct:   121 KTYSWDNAQVILVGNKCDMEDERVIFTERGKHLAEQLGFEFFETSAKDNINVKQTFERLV 180

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQP 209
             DIICDKMSESL++DP++ AG + TRL + P
Sbjct:   181 DIICDKMSESLETDPSITAGKQNTRLKDTP 210

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IEA

GO:0017157 "regulation of exocytosis" evidence=IEA

MGI|MGI:1914545 Rab3c "RAB3C, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 916 (327.5 bits), Expect = 6.3e-92, P = 6.3e-92
 Identities = 174/222 (78%), Positives = 193/222 (86%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     9 MASAQDARFGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    69 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVIL GNKCDMEDERV+S ERG+ L E LG EFFETSAKDN+NVK  FERLV
Sbjct:   129 KTYSWDNAQVILAGNKCDMEDERVVSTERGQRLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   189 DIICDKMSESLETDPAITAAKQSTRLKETPP---PPQPNCGC 227

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IEA

GO:0005829 "cytosol" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0008021 "synaptic vesicle" evidence=IDA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0017157 "regulation of exocytosis" evidence=IDA

RGD|620923 Rab3c "RAB3C, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 916 (327.5 bits), Expect = 6.3e-92, P = 6.3e-92
 Identities = 174/222 (78%), Positives = 193/222 (86%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     9 MASAQDARFGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 68

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQI
Sbjct:    69 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI 128

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             KTYSWDNAQVIL GNKCDMEDERV+S ERG+ L E LG EFFETSAKDN+NVK  FERLV
Sbjct:   129 KTYSWDNAQVILAGNKCDMEDERVVSTERGQRLGEQLGFEFFETSAKDNINVKQTFERLV 188

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   189 DIICDKMSESLETDPAITAAKQSTRLKETPP---PPQPNCGC 227

GO:0005525 "GTP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0007269 "neurotransmitter secretion" evidence=TAS

GO:0008021 "synaptic vesicle" evidence=IEA;ISO

GO:0015031 "protein transport" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=TAS

GO:0017156 "calcium ion-dependent exocytosis" evidence=TAS

GO:0017157 "regulation of exocytosis" evidence=IEA;ISO

UNIPROTKB|E1BF18 RAB3C "Ras-related protein Rab-3C" [Bos taurus (taxid:9913)]

 Score = 902 (322.6 bits), Expect = 1.9e-90, P = 1.9e-90
 Identities = 173/222 (77%), Positives = 192/222 (86%)

Query:     1 MAGVGETKW-QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
             MA   + ++ QKD++DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK
Sbjct:     1 MASAQDARYGQKDSSDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 60

Query:    60 VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             VKTVF+++KR+KLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW    
Sbjct:    61 VKTVFKNEKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSLN- 119

Query:   120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
             +TYSWDNAQVILVGNKCDMEDERVIS ERG+HL E LG EFFETSAKDN+NVK  FERLV
Sbjct:   120 QTYSWDNAQVILVGNKCDMEDERVISTERGQHLGEQLGFEFFETSAKDNINVKQTFERLV 179

Query:   180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             DIICDKMSESL++DP + A  + TRL E P    P  PNC C
Sbjct:   180 DIICDKMSESLETDPAITAAKQNTRLKETPP---PPQPNCGC 218

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P61007	RAB8A_CANFA	No assigned EC number	0.5076	0.8778	0.9371	no	N/A
P61006	RAB8A_HUMAN	No assigned EC number	0.5076	0.8778	0.9371	no	N/A
P10948	RAB3B_BOVIN	No assigned EC number	0.7477	0.9864	0.9954	no	N/A
P10949	RAB3C_BOVIN	No assigned EC number	0.7972	0.9864	0.9603	yes	N/A
Q06AU3	RAB3A_PIG	No assigned EC number	0.7399	0.9864	0.9909	no	N/A
P41924	RYL1_YARLI	No assigned EC number	0.4587	0.8597	0.9359	yes	N/A
P63011	RAB3A_MOUSE	No assigned EC number	0.7399	0.9864	0.9909	no	N/A
P35276	RAB3D_MOUSE	No assigned EC number	0.7342	0.9864	0.9954	no	N/A
P40392	RIC1_ORYSJ	No assigned EC number	0.4922	0.8506	0.9306	yes	N/A
Q5R4A3	RAB8A_PONAB	No assigned EC number	0.5025	0.8778	0.9371	no	N/A
P20790	RAB8A_DICDI	No assigned EC number	0.5166	0.8144	0.8653	yes	N/A
P20791	RAB8B_DICDI	No assigned EC number	0.5280	0.8009	0.8719	no	N/A
P25228	RAB3_DROME	No assigned EC number	0.8783	0.9909	0.9954	yes	N/A
A4FV54	RAB8A_BOVIN	No assigned EC number	0.5076	0.8778	0.9371	no	N/A
P63012	RAB3A_RAT	No assigned EC number	0.7399	0.9864	0.9909	no	N/A
O95716	RAB3D_HUMAN	No assigned EC number	0.7207	0.9864	0.9954	no	N/A
P20336	RAB3A_HUMAN	No assigned EC number	0.7354	0.9864	0.9909	no	N/A
P20337	RAB3B_HUMAN	No assigned EC number	0.7477	0.9864	0.9954	no	N/A
O24466	RAE1A_ARATH	No assigned EC number	0.4923	0.8552	0.875	yes	N/A
P35280	RAB8A_RAT	No assigned EC number	0.5076	0.8778	0.9371	no	N/A
Q63942	RAB3D_RAT	No assigned EC number	0.7630	0.9411	0.9497	no	N/A
Q63941	RAB3B_RAT	No assigned EC number	0.7630	0.9411	0.9497	no	N/A
P17609	YPT2_SCHPO	No assigned EC number	0.5625	0.7239	0.8	yes	N/A
P62823	RAB3C_MOUSE	No assigned EC number	0.7837	0.9864	0.9603	yes	N/A
P62824	RAB3C_RAT	No assigned EC number	0.7837	0.9864	0.9603	yes	N/A
P55258	RAB8A_MOUSE	No assigned EC number	0.5076	0.8778	0.9371	no	N/A
P22128	RAB8_DIPOM	No assigned EC number	0.5083	0.8099	0.8523	N/A	N/A
Q96E17	RAB3C_HUMAN	No assigned EC number	0.7972	0.9864	0.9603	yes	N/A
Q9CZT8	RAB3B_MOUSE	No assigned EC number	0.7432	0.9864	0.9954	no	N/A
Q4R5P1	RAB8A_MACFA	No assigned EC number	0.5076	0.8778	0.9371	N/A	N/A
Q4R4R9	RAB3A_MACFA	No assigned EC number	0.7354	0.9864	0.9909	N/A	N/A
Q5KTJ7	RAB3B_MESAU	No assigned EC number	0.7477	0.9864	0.9954	N/A	N/A
P11023	RAB3A_BOVIN	No assigned EC number	0.7399	0.9864	0.9909	no	N/A
Q94986	RAB3_CAEEL	No assigned EC number	0.7922	0.9230	0.9315	yes	N/A
P28186	RAE1C_ARATH	No assigned EC number	0.5025	0.8552	0.875	yes	N/A
Q39433	RB1BV_BETVU	No assigned EC number	0.5106	0.8325	0.8558	N/A	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	221
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-119
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	5e-89
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-88
pfam00071	162	pfam00071, Ras, Ras family	9e-86
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	5e-83
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	6e-74
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-68
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	2e-64
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	2e-63
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-61
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	1e-59
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	4e-58
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-56
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	2e-55
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-54
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	4e-53
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-52
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	1e-51
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-50
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	2e-50
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	4e-50
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	5e-50
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-49
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	2e-48
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	1e-46
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-46
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	2e-42
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	5e-42
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	5e-40
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	3e-39
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	4e-39
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	4e-39
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-38
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	4e-38
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	1e-36
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	3e-34
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	4e-33
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	6e-33
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-32
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	8e-32
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	9e-32
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	2e-31
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	7e-31
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	8e-31
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	8e-31
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	9e-31
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	3e-30
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	5e-30
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	6e-30
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	1e-29
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	2e-29
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	2e-27
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	2e-27
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	5e-27
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	6e-27
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	7e-27
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	5e-26
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	6e-26
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	4e-25
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	5e-25
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	2e-24
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	3e-24
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	7e-24
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	8e-23
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	2e-22
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-22
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	5e-22
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	8e-22
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	2e-20
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	4e-20
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-19
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	6e-19
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	5e-18
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	5e-18
pfam08477	116	pfam08477, Miro, Miro-like protein	2e-17
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-17
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	4e-17
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	4e-16
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	6e-16
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	2e-15
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	4e-15
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	5e-15
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	7e-15
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	4e-14
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	9e-12
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	8e-09
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	7e-08
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	1e-07
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	1e-07
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	3e-07
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	3e-07
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	4e-07
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	5e-07
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	6e-07
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	8e-07
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	8e-07
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	9e-07
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	1e-06
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	1e-06
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	2e-06
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	2e-06
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	9e-06
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	1e-05
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	3e-05
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	6e-05
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	6e-05
TIGR02729	329	TIGR02729, Obg_CgtA, Obg family GTPase CgtA	8e-05
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	1e-04
PRK12297	424	PRK12297, obgE, GTPase CgtA; Reviewed	0.002
cd01898	170	cd01898, Obg, Obg GTPase	0.002
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	0.003
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	0.003
PRK12299	335	PRK12299, obgE, GTPase CgtA; Reviewed	0.004
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	0.004

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  336 bits (864), Expect = e-119
 Identities = 146/165 (88%), Positives = 157/165 (95%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV+R+DKR+KLQIWDTAGQ
Sbjct: 1   MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQ 60

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           ERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQVILVGNKCDMED
Sbjct: 61  ERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMED 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           ERV+S ERG+ LA+ LG EFFE SAK+N+NVK VFERLVDIICDK
Sbjct: 121 ERVVSAERGRQLADQLGFEFFEASAKENINVKQVFERLVDIICDK 165

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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. Length = 165

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  258 bits (663), Expect = 5e-89
 Identities = 83/161 (51%), Positives = 120/161 (74%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK+++IG+S VGK+S L R+ D  F+  + ST+G+DFK KT+    KRVKLQIWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R+IT++YYRGA+G +L+YD+TN ESF ++++W+ +++ Y+  N  ++LVGNK D+E++
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQ 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +S E  +  AE  G+ FFETSAK N NV+  FE L   I
Sbjct: 121 RQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREI 161

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  257 bits (659), Expect = 2e-88
 Identities = 92/167 (55%), Positives = 131/167 (78%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           DY+FKLL+IG+S VGK+  L R+++DSF  +F+ST+GIDFK++T+    K++KLQIWDTA
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTITT+YYRGAMG IL+YD+T+E+SF +I++W+  I  ++ ++ + +LVGNKCDM
Sbjct: 61  GQERFRTITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDM 120

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           E++RV+S E G+ LA   G++F ETSAK N+NV+  F  L   I  K
Sbjct: 121 EEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDILKK 167

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. 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. Length = 167

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score =  250 bits (641), Expect = 9e-86
 Identities = 78/162 (48%), Positives = 114/162 (70%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G+  VGK+S L R+  + F   ++ T+G+DF  KT+    K VKLQIWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER 142
           +R +   YYRGA GF+L+YD+T+ +SF +++ W+ +I  ++ +N  ++LVGNKCD+ED+R
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQR 120

Query: 143 VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           V+S E G+ LA+ LG+ F ETSAK N NV+  FE L   I  
Sbjct: 121 VVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  243 bits (623), Expect = 5e-83
 Identities = 86/159 (54%), Positives = 115/159 (72%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK+++IG+S VGKTS L R+ D+ F+  + ST+G+DFK KT+    K+VKLQIWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R+IT++YYRGA G IL+YDVTN ESF ++  W+ ++K Y+  N  +ILVGNK D+EDE
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDE 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           R +S E  +  A+  G+ FFETSAK   NV   FE L  
Sbjct: 121 RQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159

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. Length = 159

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  221 bits (564), Expect = 6e-74
 Identities = 82/159 (51%), Positives = 122/159 (76%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K VKLQIWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD+ 
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLT 120

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           D++V+ +   K  A+ LG+ F ETSAK+  NV+  F  +
Sbjct: 121 DKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTM 159

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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. Length = 166

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  208 bits (530), Expect = 1e-68
 Identities = 80/180 (44%), Positives = 130/180 (72%), Gaps = 11/180 (6%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK--------- 68
           +DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V  + +         
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKA 60

Query: 69  -RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DN 126
            RV LQ+WDTAGQER+R++TTA++R AMGF+LM+D+T+E+SF ++++W++Q++ +++ +N
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCEN 120

Query: 127 AQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
             ++L+GNK D+ D+R +S  + + LA+  G+ +FETSA    NV+   E L+D+I  +M
Sbjct: 121 PDIVLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 180

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. 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. Length = 180

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  196 bits (501), Expect = 2e-64
 Identities = 71/165 (43%), Positives = 111/165 (67%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    K +K QIWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQERYR IT+AYYRGA+G +L+YD+T + +F +++ W+ +++ ++  N  ++LVGNK D+
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDL 120

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
              R +  E  K  AE  G+ F ETSA D  NV+  F++L+  I 
Sbjct: 121 RHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEIY 165

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. 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. Length = 165

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  195 bits (498), Expect = 2e-63
 Identities = 83/194 (42%), Positives = 135/194 (69%), Gaps = 6/194 (3%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +++D++FKLLIIG+S VGK+S L R+AD++F+ ++++T+G+DFK++TV  + +RVKLQIW
Sbjct: 1   RDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIW 60

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+RTIT+ YYRG  G I++YDVTN ESF +++ W+ +I+  + D+   +LVGNK
Sbjct: 61  DTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ-NCDDVCKVLVGNK 119

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM-----SESL 190
            D  + +V+  E     A  +G+  FETSAK+N+NV+ +F  + +++          +  
Sbjct: 120 NDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQ 179

Query: 191 DSDPNLVAGPKGTR 204
               ++V  PK ++
Sbjct: 180 QQQNDVVKLPKNSK 193

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. 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. Length = 199

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  189 bits (483), Expect = 1e-61
 Identities = 81/162 (50%), Positives = 111/162 (68%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+L+IG+S VGK+S L R+ DD+F     ST+G+DFKVKTV    K+VKL IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED 140
           R+RT+T++YYRGA G IL+YDVT  ++F ++  W+ ++ TYS   +A  +LVGNK D E 
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKE- 119

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            R ++ E G+  A    + F ETSAK  + V+  FE LV+ I
Sbjct: 120 NREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. 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. Length = 161

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  184 bits (470), Expect = 1e-59
 Identities = 67/155 (43%), Positives = 99/155 (63%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+SSVGK+S + R+  + F+    ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 2   FKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQE 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RYR++   YYRGA   I++YD+T+EESF   + W+ +++ +   N  + L GNK D+E +
Sbjct: 62  RYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESK 121

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           R +S E  +  A+  G+ F ETSAK   NV  +F 
Sbjct: 122 RQVSTEEAQEYADENGLLFMETSAKTGENVNELFT 156

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. 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. Length = 163

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  180 bits (459), Expect = 4e-58
 Identities = 75/161 (46%), Positives = 111/161 (68%), Gaps = 1/161 (0%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D++FK+++IG+S+VGKT  + R+   +F+    +T+G+DF +KT+    KRVKLQIWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTIT +YYR A G I+ YD+T   SF S+  WI +++ Y   N  ++L+GNKCD+
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDL 120

Query: 139 EDERVISFERGKHLAESLGVEF-FETSAKDNVNVKGVFERL 178
           E++R + FE    LAE  G+    ETSAK++ NV+  F  +
Sbjct: 121 EEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLM 161

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. 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. Length = 165

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  176 bits (449), Expect = 1e-56
 Identities = 65/161 (40%), Positives = 106/161 (65%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL+ +G+ SVGKTS + R+  D+F + + +T+GIDF  KT++  DK V+LQ+WDTAGQE
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN +SF +   WI  ++    ++  ++LVGNK D+ D+
Sbjct: 61  RFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDK 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +S E G+  A+     F ETSAK   NVK +F+++   +
Sbjct: 121 RQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 161

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. 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. Length = 161

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  173 bits (441), Expect = 2e-55
 Identities = 66/161 (40%), Positives = 98/161 (60%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK++++G   VGKTS + RY ++ F     ST    F  KTV    KR+ L IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY  +   YYR A G IL+YD+T+ +SF  ++ WI ++K    +N  +++VGNK D+E +
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQ 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           RV+S    +  A+S+G + FETSAK    ++ +F  L   +
Sbjct: 121 RVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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. Length = 162

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  172 bits (437), Expect = 2e-54
 Identities = 82/165 (49%), Positives = 119/165 (72%), Gaps = 1/165 (0%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           +++IIG+  VGKTS + R+ DD+F  A  STVG+DFK+KTV    K+++LQIWDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER 142
           + +IT+AYYR A G IL+YD+T +E+F  +  W+  I  Y+ ++A+++LVGNK D E +R
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDR 121

Query: 143 VISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVDIICDKM 186
            I+ ++G+  A+ + G+ F E SAKDN NV  +F +LVD I  KM
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 166

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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. Length = 202

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  168 bits (428), Expect = 4e-53
 Identities = 77/155 (49%), Positives = 108/155 (69%), Gaps = 1/155 (0%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           FK++++G+S VGKT  L R+ D +F   +F++TVGI F  K V     +VKLQIWDTAGQ
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQ 60

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           ER+R++T AYYR A   +L+YDVTN+ SF +I+ W+T+I  Y+  +  ++L+GNK DM  
Sbjct: 61  ERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSG 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           ERV+  E G+ LA+  GV F ETSAK  +NV+  F
Sbjct: 121 ERVVKREDGERLAKEYGVPFMETSAKTGLNVELAF 155

Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. 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. Length = 191

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  166 bits (423), Expect = 1e-52
 Identities = 70/168 (41%), Positives = 105/168 (62%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           + Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  + +    K++KLQIWDT
Sbjct: 1   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 60

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQE +R+IT +YYRGA G +L+YD+T  E+F  +  W+   + +S  N  ++L+GNKCD
Sbjct: 61  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCD 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           +E  R +S+E G+  A   G+ F ETSAK   NV+  F      I DK
Sbjct: 121 LESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYDK 168

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. 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. Length = 168

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  164 bits (416), Expect = 1e-51
 Identities = 77/161 (47%), Positives = 113/161 (70%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           F+LL+IG+S VGKT  L R+ D+ F S+ +ST+G+DFK+KT+     +V++QIWDTAGQE
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY+TIT  YYR A G  L+YD+++E S+  I  W++ +  Y+ +  Q IL+GNK D E +
Sbjct: 61  RYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQK 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +  E+G  LA+  G++FFETSA  N N+K  F RL +++
Sbjct: 121 RQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLTELV 161

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. 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. Length = 164

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  163 bits (414), Expect = 1e-50
 Identities = 72/168 (42%), Positives = 115/168 (68%), Gaps = 1/168 (0%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    K VK QI
Sbjct: 6   DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQI 65

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQERYR IT+AYYRGA+G +L+YD+T  ++F ++Q W+ +++ ++  N  +++ GN
Sbjct: 66  WDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGN 125

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER-LVDI 181
           K D+   R ++ E G+ LAE  G+ F ETSA +  NV+  F+  L++I
Sbjct: 126 KSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEI 173

Length = 216

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  161 bits (409), Expect = 2e-50
 Identities = 69/163 (42%), Positives = 112/163 (68%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +++D++FK+++IGN+ VGKT  + R+    F     +T+G+DF +KTV    +++KLQIW
Sbjct: 2   EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIW 61

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+R+IT +YYR A   IL YD+T EESF  + +W+ +I+ Y+ +    ILVGNK
Sbjct: 62  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNK 121

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
            D+ + R +S +R +  +++  + + ETSAK++ NV+ +F  L
Sbjct: 122 IDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDL 164

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. 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. Length = 169

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  161 bits (410), Expect = 4e-50
 Identities = 70/161 (43%), Positives = 111/161 (68%), Gaps = 2/161 (1%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTA 78
           Y F+L++IG+S+VGK+S L R+ +  F      TVG+DF  + +      R+KLQ+WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV-ILVGNKCD 137
           GQER+R+IT +YYR ++G +L++D+TN ESF  + DW+ + +++   +  V ILVG+KCD
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCD 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           +E +R ++ E  + LA+ LG+++ ETSA+   NV+  FE L
Sbjct: 121 LESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELL 161

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. 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. Length = 211

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  160 bits (406), Expect = 5e-50
 Identities = 66/160 (41%), Positives = 105/160 (65%), Gaps = 5/160 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V LQIWDTAGQE
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNKCD 137
           R++++  A+YRGA   +L+YDVTN +SF S+  W    + Q      +N   +++GNK D
Sbjct: 61  RFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKID 120

Query: 138 MEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
           +E++R +S ++ +   +S G + +FETSAK+ +NV   FE
Sbjct: 121 LEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFE 160

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. 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. Length = 172

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  158 bits (401), Expect = 2e-49
 Identities = 68/161 (42%), Positives = 103/161 (63%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK LIIG++  GK+  L ++ ++ F      T+G++F  + V    K VKLQIWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++T +YYRGA G +L+YD+T+ ESF ++ +W+T  +T +  +  +ILVGNK D+ED+
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDD 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R ++F      A+  G+ F ETSA    NV+  F +    I
Sbjct: 121 REVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARSI 161

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. 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. Length = 161

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  157 bits (399), Expect = 2e-48
 Identities = 79/163 (48%), Positives = 106/163 (65%), Gaps = 3/163 (1%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +D  FK+L+IG+S VGK+S L  +   S       T+G+DFK+K +    KR+KL IWDT
Sbjct: 11  YDLSFKILLIGDSGVGKSSLLVSFISSS-VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDT 69

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQV-ILVGNK 135
           AGQER+RT+T++YYR A G IL+YDVT  E+FT++ D W  +++ YS +   V +LVGNK
Sbjct: 70  AGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNK 129

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
            D E ER +S E G  LA+  G  F E SAK   NV+  FE L
Sbjct: 130 VDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEEL 172

Length = 211

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  152 bits (386), Expect = 1e-46
 Identities = 66/174 (37%), Positives = 107/174 (61%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           ++ Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  + +   +K +KLQIWD
Sbjct: 2   SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWD 61

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQE +R+IT +YYRGA G +L+YD+T  E+F  +  W+   + ++  N  ++L+GNKC
Sbjct: 62  TAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKC 121

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
           D+   R +S E G+  A+  G+ F E SAK   NV+  F +    I  K+ + +
Sbjct: 122 DLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGV 175

Length = 210

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  151 bits (382), Expect = 2e-46
 Identities = 59/156 (37%), Positives = 99/156 (63%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y+FK +IIG+  VGK+  L ++ +  F +    T+G++F  + +  + +++KLQIWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+R +T +YYRGA G +++YD+T   ++  +  W+T  +  +  N  + L+GNK D+E
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLE 120

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
            +R +++E  K  A+  G+ F E SAK   NV+  F
Sbjct: 121 AQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAF 156

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of 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. Length = 166

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  140 bits (355), Expect = 2e-42
 Identities = 61/158 (38%), Positives = 89/158 (56%), Gaps = 2/158 (1%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G   VGK++   R+    F   +  T+  D   K +    +   L I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMEDE 141
           +  +   Y R   GFIL+Y +T+ ESF  I++   QI      ++  ++LVGNKCD+E+E
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENE 119

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           R +S E G+ LAE  G  F ETSAK N+N+  +F  LV
Sbjct: 120 RQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLV 157

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  140 bits (356), Expect = 5e-42
 Identities = 60/180 (33%), Positives = 101/180 (56%), Gaps = 7/180 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQ 80
           FK+L+IG+  VGKTS + RY    F+  + +T+G+DF +K + +  +  V+LQ+WD AGQ
Sbjct: 1   FKVLVIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQ 60

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI--KTYSWDNAQV--ILVGNKC 136
           ER+  +T  YY+GA+G I+++DVT   +F ++  W   +  K    +   +  +L+ NKC
Sbjct: 61  ERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKC 120

Query: 137 DM--EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP 194
           D+  E       +  +   E+  + +FETSAK+N+N++     LV  I          +P
Sbjct: 121 DLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGLQSPEP 180

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. 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. Length = 201

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  134 bits (340), Expect = 5e-40
 Identities = 56/167 (33%), Positives = 94/167 (56%), Gaps = 5/167 (2%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++ +GNS VGK+  + RY +  F S ++ T+GID+ VK V   +K V++  +D +G   
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-----WDNAQVILVGNKCD 137
           Y  +   +Y+   G +L+YDVT+ +SF ++  W+ ++K         +N  V++  NK D
Sbjct: 62  YLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKID 121

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           +   R +S + G+  AES G ++FETSA     V  +F+ L   I D
Sbjct: 122 LTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIVD 168

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. 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. Length = 168

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  132 bits (335), Expect = 3e-39
 Identities = 62/162 (38%), Positives = 91/162 (56%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+  D   K +    +   L I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+L+Y +T+ +SF  I+ +  QI +    D+  ++LVGNKCD+E 
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLES 119

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ERV+S E GK LA   G  F ETSAK+ VNV   F  LV  I
Sbjct: 120 ERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREI 161

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score =  133 bits (337), Expect = 4e-39
 Identities = 63/218 (28%), Positives = 107/218 (49%), Gaps = 22/218 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK++++G+  VGKT+ L R   D F   +  T+G     KT+  + + +KLQ+WDTAGQE
Sbjct: 6   FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE 65

Query: 82  RYRTITTAYYRGAMGFILMYDVTN-EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
            YR++   YYRGA G +++YD T  E S    ++W+ +++  + D+  ++LVGNK D+ D
Sbjct: 66  EYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFD 125

Query: 141 ERVISFERGKHLA---------------ESLGVEFFETSAK--DNVNVKGVFERLVDIIC 183
           E+  S E    L                E       ETSAK     NV  +F+ L+  + 
Sbjct: 126 EQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLL 185

Query: 184 DKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
           +++ + +  +           +    ++    + NC  
Sbjct: 186 EEIEKLVLKNELRQLDRLNNPI----EQAALASFNCVL 219

Length = 219

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score =  133 bits (335), Expect = 4e-39
 Identities = 67/167 (40%), Positives = 97/167 (58%), Gaps = 1/167 (0%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           + +DY+ K L++G+S VGK   L    D S  S +   +GID+K  T+    +RVKLQ+W
Sbjct: 1   KAYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLW 60

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DT+GQ R+ TI  +Y RGA G IL+YD+TN  SF  I  WI +I  ++      ILVGN+
Sbjct: 61  DTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNR 119

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
             +  +R ++ E+ +  AE  G+ FFE S   N N+   F  L  I+
Sbjct: 120 LHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIV 166

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. 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. Length = 189

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  130 bits (329), Expect = 2e-38
 Identities = 63/160 (39%), Positives = 101/160 (63%), Gaps = 7/160 (4%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FK+++IG+S+VGKT   +R+    F     +T+G+DF+ +TV    +R+K+Q+WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 82  RYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV--ILVGNKCDM 138
           R+R ++   YYR     + +YDVTN  SF S+  WI + + +S    +V  ILVGNKCD+
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSL-PNEVPRILVGNKCDL 121

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKD---NVNVKGVF 175
            ++  +  +  +  A++  +  FETSAKD   N +V+ +F
Sbjct: 122 REQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIF 161

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. 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. Length = 170

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  129 bits (327), Expect = 4e-38
 Identities = 61/162 (37%), Positives = 90/162 (55%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   ++    F   +  T+  D   K +    +   L I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+L+Y +T+ +SF  I  +  QI +    D+  ++LVGNKCD+E+
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLEN 121

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ERV+S E GK LA   G  F ETSAK+ +NV   F  LV  I
Sbjct: 122 ERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREI 163

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  125 bits (316), Expect = 1e-36
 Identities = 65/160 (40%), Positives = 99/160 (61%), Gaps = 3/160 (1%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF--RHDKRVKLQIWDTAGQ 80
           K++++GN +VGK+S + R+    FT  +  T+G+DF  K +F  + D+ V+L +WDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           E +  IT AYYRGA   IL++  T+ ESF +I+ W  +++    D   V LV  K D+ D
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIPMV-LVQTKIDLLD 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           + VI+ E  + LA+ L +  F TS KD+ NV  +FE L +
Sbjct: 121 QAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAE 160

Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. 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. Length = 162

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score =  119 bits (302), Expect = 3e-34
 Identities = 56/172 (32%), Positives = 87/172 (50%), Gaps = 15/172 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+ +VGKT  L  Y  + F + +V TV  D     V    K+V L +WDTAGQE 
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEE 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    Y     F+L + V +  SF +++  W  +IK Y   N  +ILVG K D+ D+
Sbjct: 61  YDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDLRDD 119

Query: 142 R-----------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDI 181
                        I+ E G+ LA+ +G V++ E SA     +K VF+  +  
Sbjct: 120 GNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIRA 171

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  117 bits (295), Expect = 4e-33
 Identities = 62/176 (35%), Positives = 97/176 (55%), Gaps = 7/176 (3%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ ++G+ SVGK+S   ++ +  F  ++  T+   F     ++  +   L+I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTFSKIITYKGQE-YHLEIVDTAGQDE 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESF---TSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           Y  +   Y  G  G+IL+Y VT+ +SF     I D I  +     ++  ++LVGNK D+ 
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKI--LDMLGKESVPIVLVGNKSDLH 119

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPN 195
            ER +S E GK LAES G  F E+SAK+N NV+  FE L++ I +K+   L     
Sbjct: 120 MERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI-EKVENPLPPGQK 174

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score =  116 bits (293), Expect = 6e-33
 Identities = 51/167 (30%), Positives = 89/167 (53%), Gaps = 16/167 (9%)

Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY 83
           L+++G+ +VGKT  L  Y  ++F   +V TV  +     V    K V+L +WDTAGQE Y
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTV-FENYSADVEVDGKPVELGLWDTAGQEDY 59

Query: 84  RTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDER 142
             +    Y     F++ + V +  SF ++++ W  ++K +   N  +ILVG K D+ +++
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGTKLDLRNDK 118

Query: 143 V------------ISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                        +++E+G+ LA+ +G V++ E SA     V+ VFE
Sbjct: 119 STLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFE 165

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score =  115 bits (290), Expect = 1e-32
 Identities = 49/165 (29%), Positives = 77/165 (46%), Gaps = 13/165 (7%)

Query: 25  LIIGNSSVGKTSFLFRYADDSFT---SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +++G   VGK+S L                +T   D  VK +     +VKL + DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKEL--DKGKVKLVLVDTPGLD 58

Query: 82  RY-----RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
            +       +     RGA   +L+ D T+ ES    +  I  ++    +   +ILVGNK 
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLI--LRRLRKEGIPIILVGNKI 116

Query: 137 DMEDERVIS-FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           D+ +ER +    R + LA+ LGV  FE SAK    V  +FE+L++
Sbjct: 117 DLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 161

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score =  113 bits (284), Expect = 8e-32
 Identities = 58/162 (35%), Positives = 95/162 (58%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF+L+Y +T + +F  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ERV+  E+G++LA   G  F ETSAK  +NV  +F  LV  I
Sbjct: 121 ERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score =  113 bits (284), Expect = 9e-32
 Identities = 59/162 (36%), Positives = 89/162 (54%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   ++    F + +  T+  D   K      +  +L I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAGQE 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+L++ VT+  SF  +  + TQI +    D   +ILVGNK D+E 
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEH 121

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +R +S E G+ LA  L + + ETSAKD VNV   F  LV +I
Sbjct: 122 QRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLVRVI 163

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  112 bits (282), Expect = 2e-31
 Identities = 54/163 (33%), Positives = 94/163 (57%), Gaps = 4/163 (2%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK+S + RY  + F +    T+G++F  K +      V LQIWDTAGQ
Sbjct: 5   LLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQ 64

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKC 136
           ER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y+     ++   +++GNK 
Sbjct: 65  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+ + +V + E      ++    +FETSAKD  NV   FE  V
Sbjct: 125 DIPERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV 167

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. 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. Length = 170

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score =  112 bits (282), Expect = 7e-31
 Identities = 51/162 (31%), Positives = 89/162 (54%), Gaps = 4/162 (2%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQ 80
            K++++G+ + GKTS + R+A + F  ++  T+G+DF  + +       V LQ+WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY---SWDNAQVILVGNKCD 137
           +    +   Y  GA    L+YD+TN +SF +++DW++ +K     S    +++LVGNK D
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTD 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +E  R ++ E+    A+   +E    SAK    V   F+R+ 
Sbjct: 121 LEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIA 162

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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. Length = 213

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  111 bits (278), Expect = 8e-31
 Identities = 58/154 (37%), Positives = 94/154 (61%), Gaps = 1/154 (0%)

Query: 44  DSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDV 103
           D+F + + ST+GIDF  KT++  +  V+LQ+WDTAGQER+R++  +Y R +   I++YD+
Sbjct: 3   DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDI 62

Query: 104 TNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFET 163
           TN +SF +   WI  I      +  + LVGNK D+ D R +++E G   A+     F ET
Sbjct: 63  TNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHET 122

Query: 164 SAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV 197
           SAK   N+K +F+++   + + +  S  +D N+V
Sbjct: 123 SAKAGHNIKVLFKKIAAKLPN-LDNSNSNDANVV 155

Length = 176

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score =  111 bits (278), Expect = 8e-31
 Identities = 59/160 (36%), Positives = 93/160 (58%), Gaps = 3/160 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+  D   K +    ++  L+I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T ++SF  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 120

Query: 141 ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ERV+S E G++LA   G   F ETSAK  +NV  +F  LV
Sbjct: 121 ERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLV 160

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score =  110 bits (277), Expect = 9e-31
 Identities = 53/161 (32%), Positives = 88/161 (54%), Gaps = 5/161 (3%)

Query: 23  KLLIIGNSSVGKTSF--LFRYADDSFTSAFVSTVGIDFKVKTVF--RHDKRVKLQIWDTA 78
           +  ++G+ +VGK++   +F     +F   +  T G D  VKTV        V+L I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV-ILVGNKCD 137
           GQE +  +    +       ++YDVTNE SF +   WI +++T+S       +LVGNKCD
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCD 121

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           + D R +   + + LA++  ++F+ETSAK+ V  +  F  L
Sbjct: 122 LTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSL 162

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score =  109 bits (274), Expect = 3e-30
 Identities = 64/159 (40%), Positives = 94/159 (59%), Gaps = 2/159 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++++G+  VGK++   ++  D F   +  T   D   K V    + V+L I DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQE 59

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            Y  I   Y+R   GF+L++ +T+ ESFT++ ++  QI +    DN  ++LVGNKCD+ED
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLED 119

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +R +S E   +LAE  GV + ETSAK   NV  VF  LV
Sbjct: 120 KRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLV 158

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  109 bits (274), Expect = 5e-30
 Identities = 59/162 (36%), Positives = 88/162 (54%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   ++  + F   +  T+   ++ K     ++   L I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQE 64

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ +Y +T+  SF  I  +  QI +    D   +ILVGNKCD++ 
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDS 124

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ER +S   G+ LA+S G+ F ETSAK  VNV   F  LV  I
Sbjct: 125 ERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREI 166

Length = 189

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  108 bits (272), Expect = 6e-30
 Identities = 54/162 (33%), Positives = 90/162 (55%), Gaps = 6/162 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K++++G+  VGK++   ++   +F   +  T+  DF  K +        L+I DTAG E
Sbjct: 2   YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI---QDWITQIKTYSWDNAQVILVGNKCDM 138
           ++ ++   Y +   GFI++Y + N+++F  I   +D I ++K Y  +   +ILVGNK D+
Sbjct: 61  QFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGY--EKVPIILVGNKVDL 118

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
           E ER +S   G+ LAE  G  F ETSAK    V  +F  +V 
Sbjct: 119 ESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVR 160

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score =  108 bits (272), Expect = 1e-29
 Identities = 58/160 (36%), Positives = 88/160 (55%), Gaps = 4/160 (2%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G+  VGKT+   +   + F   +  T+   ++ + V    +   L++ DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYRKQVVV-DGQPCMLEVLDTAGQEE 59

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI---KTYSWDNAQVILVGNKCDME 139
           Y  +   + R   GFIL+Y +T+  +F  ++ +  QI   K  S  +  +++VGNKCD  
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            ER +S E G  LA  LG EF E SAK NVNV+  F  LV
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV 159

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 190

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score =  108 bits (270), Expect = 2e-29
 Identities = 53/166 (31%), Positives = 90/166 (54%), Gaps = 6/166 (3%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           K++++G  SVGKTS + RY    F    + +T+G  F  K +   ++ V L IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM--- 138
           RY  ++  YYRGA   I+ YD+T+  SF   + W+ +++    ++ ++ L G K D+   
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQ 120

Query: 139 -EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
               R + F   +  A+ +  + FETS+K   NV  +F+++ +   
Sbjct: 121 DRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFV 166

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. 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. Length = 193

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score =  102 bits (256), Expect = 2e-27
 Identities = 54/163 (33%), Positives = 80/163 (49%), Gaps = 8/163 (4%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ ++G S VGK++   R+    F   +   +   +  + V    ++V L+I DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYS-RQVTIDGEQVSLEIQDTPGQQQ 59

Query: 83  YRT--ITTAYYRGAMGFILMYDVTNEESFTSIQDW---ITQIKTYSWDNAQVILVGNKCD 137
                      R A GF+L+Y +T+  SF  +      I +IK        VILVGNK D
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRD-GEIPVILVGNKAD 118

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVN-VKGVFERLV 179
           +   R +S E G+ LA  LG  FFE SA +N   V+ VF  L 
Sbjct: 119 LLHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELC 161

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity. Length = 166

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score =  103 bits (258), Expect = 2e-27
 Identities = 56/180 (31%), Positives = 99/180 (55%), Gaps = 19/180 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+  VGKT+F+ R+    F   ++ T+G++      + +   +   +WDTAGQE
Sbjct: 10  FKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQE 69

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           ++  +   YY      I+M+DVT+  ++ ++ +W   I     +N  ++LVGNK D++D 
Sbjct: 70  KFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDI-VRVCENIPIVLVGNKVDVKDR 128

Query: 142 RV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV 197
           +V    I+F R K+L      ++++ SAK N N    FE+    +  +    L +DPNLV
Sbjct: 129 QVKARQITFHRKKNL------QYYDISAKSNYN----FEKPFLWLARR----LTNDPNLV 174

Length = 215

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score =  100 bits (252), Expect = 5e-27
 Identities = 55/162 (33%), Positives = 85/162 (52%), Gaps = 3/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+  D   K V    +   L I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + + +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            R +S  +G+ LA+S G+ + ETSAK    V+  F  LV  I
Sbjct: 121 -RTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score =  101 bits (254), Expect = 6e-27
 Identities = 51/182 (28%), Positives = 88/182 (48%), Gaps = 15/182 (8%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D   K++++G+   GKT  L  YA  SF   +V TV  ++       + K ++L +WDTA
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCD 137
           GQE Y  +    Y      ++ Y V N  S  +++D W  ++  +      ++LVG K D
Sbjct: 61  GQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVNHFC-PGTPIVLVGLKTD 119

Query: 138 M------------EDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDIICD 184
           +            +    ++ E+G+ +A+S+G V + E SAK   NV  VF+  +++   
Sbjct: 120 LRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINVALS 179

Query: 185 KM 186
           K 
Sbjct: 180 KS 181

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  100 bits (251), Expect = 7e-27
 Identities = 58/168 (34%), Positives = 96/168 (57%), Gaps = 4/168 (2%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K++++G   VGK++   ++  + F  ++  T+   ++ K V    ++  L+I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGTE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF+L+Y VT+E S   + +   Q+ +    DN  ++LVGNK D+ED
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLED 120

Query: 141 ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV-DIICDKM 186
           +R +S E G  L++  G V F+ETSA+   NV  VF  LV  IIC  M
Sbjct: 121 DRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIICVIM 168

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 168

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 98.5 bits (246), Expect = 5e-26
 Identities = 49/156 (31%), Positives = 88/156 (56%), Gaps = 15/156 (9%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--VKLQIWDTAG 79
           FKL+++G+   GKT+F+ R+    F   +V+T+G++  V  +  H  R  ++  +WDTAG
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLDFHTNRGKIRFNVWDTAG 58

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QE++  +   YY      I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D++
Sbjct: 59  QEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIK 117

Query: 140 DERV----ISFERGKHLAESLGVEFFETSAKDNVNV 171
           D +V    I+F R K       ++++E SAK N N 
Sbjct: 118 DRKVKPKQITFHRKK------NLQYYEISAKSNYNF 147

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 98.2 bits (245), Expect = 6e-26
 Identities = 42/159 (26%), Positives = 72/159 (45%), Gaps = 6/159 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDS-FTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAG 79
            K++I+G+ +VGK++ L R   +    + +      ++ V TV   D K  K  + DTAG
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNY-VTTVIEEDGKTYKFNLLDTAG 60

Query: 80  QERYRTITTAYYRGAMGFILMYDVTN-EESFTSI-QDWITQIKTYSWDNAQVILVGNKCD 137
           QE Y  I   YYR     + ++D+         I +    +I  ++     +ILVGNK D
Sbjct: 61  QEDYDAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKID 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           + D ++ +       A+  G      SA+   N+   F+
Sbjct: 121 LRDAKLKTHVAFL-FAKLNGEPIIPLSAETGKNIDSAFK 158

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 97.5 bits (243), Expect = 4e-25
 Identities = 51/167 (30%), Positives = 89/167 (53%), Gaps = 16/167 (9%)

Query: 16  QNFDY-MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           Q  DY  FKL+I+G+   GKT+F+ R+    F   +  T+G++      F +  +++   
Sbjct: 7   QTVDYPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYC 66

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQE++  +   YY      I+M+DVT   ++ ++  W   +     +N  ++L GN
Sbjct: 67  WDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDL-CRVCENIPIVLCGN 125

Query: 135 KCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFER 177
           K D+++ +V    ++F R K+L      +++E SAK N N    FE+
Sbjct: 126 KVDVKNRQVKAKQVTFHRKKNL------QYYEISAKSNYN----FEK 162

Length = 219

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 96.3 bits (240), Expect = 5e-25
 Identities = 40/159 (25%), Positives = 84/159 (52%), Gaps = 8/159 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ ++G++ +GKTS + +Y +  F   ++ T+G++F  KT+      +   IWD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM---- 138
           +  +     + A+  + M+D+T + +  SI++W  Q + ++   A  ILVG K D+    
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGFN-KTAIPILVGTKYDLFADL 120

Query: 139 --EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
             E++  I+ ++ +  A+++       S   ++NV+ +F
Sbjct: 121 PPEEQEEIT-KQARKYAKAMKAPLIFCSTSHSINVQKIF 158

Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. 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. Length = 182

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 94.4 bits (235), Expect = 2e-24
 Identities = 55/168 (32%), Positives = 88/168 (52%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K +++G+ +VGKTS +  Y  + + + +V T   +F V  V    K V+LQ+ DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVV-VLVDGKPVRLQLCDTAGQDE 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           +  +    Y     F+L + V N  SF +I + WI +I+ ++   A +ILVG + D+   
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTD 119

Query: 141 -----------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                      E+ +S  R K LAE +G  E+ E SA    N+K VF+
Sbjct: 120 VNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFD 167

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score = 93.8 bits (233), Expect = 3e-24
 Identities = 47/159 (29%), Positives = 88/159 (55%), Gaps = 14/159 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-----KRVKLQIWDT 77
           K++++G+S+VGK+  + R+  D +    +ST  +     T+++H+     K + +  WDT
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYAL-----TLYKHNAKFEGKTILVDFWDT 56

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER++T+  +YY  A   IL++DVT + ++ ++  W  +++ Y       I+V NK D
Sbjct: 57  AGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYR-PEIPCIVVANKID 115

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           + D  V   ++  + AE   +  +  SA D  NV  +F+
Sbjct: 116 L-DPSVT--QKKFNFAEKHNLPLYYVSAADGTNVVKLFQ 151

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. 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. Length = 161

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score = 93.0 bits (231), Expect = 7e-24
 Identities = 50/159 (31%), Positives = 87/159 (54%), Gaps = 3/159 (1%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+ SVGKT  + R+  D F   + +T+G+DF+++          LQ+WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME-- 139
           ++ I + YYRGA   I+++D+T+  S    + W+   +K     +  + LVG K D+   
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSP 121

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
            +  +  +    LA  +  E++  SA    NV+  F R+
Sbjct: 122 AQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRV 160

Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. 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. Length = 170

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 90.3 bits (224), Expect = 8e-23
 Identities = 50/164 (30%), Positives = 87/164 (53%), Gaps = 6/164 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV-KLQIWDTAGQ 80
           +++++ G   VGK+S + R+   +F  +++ T  I+   + V    K +  LQI DT G 
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPT--IEDTYRQVISCSKSICTLQITDTTGS 59

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESF---TSIQDWITQIKTYSWDNAQVILVGNKCD 137
            ++  +          FIL+Y +T+++S      I + I +IK  + +   ++LVGNKCD
Sbjct: 60  HQFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCD 119

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI 181
               R +S   G  LA +    F ETSAK N NV+ +F+ L+++
Sbjct: 120 ESPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQELLNL 163

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 89.0 bits (221), Expect = 2e-22
 Identities = 54/168 (32%), Positives = 86/168 (51%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDM-ED 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+  D
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 120

Query: 141 ERVI-----------SFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
           E  I             E G+ +AE +G   + E SAK    V+ VFE
Sbjct: 121 EHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFE 168

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score = 89.1 bits (221), Expect = 3e-22
 Identities = 52/170 (30%), Positives = 86/170 (50%), Gaps = 6/170 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K++++G   VGK++   ++   SF      T+   +K +     ++   L I DTAGQ 
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQARI-DNEPALLDILDTAGQA 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW---ITQIKTYSWDNAQVILVGNKCDM 138
            +  +   Y R   GFI+ Y VT+  SF    ++   IT+++    ++  ++LVGNK D+
Sbjct: 62  EFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLT--EDIPLVLVGNKVDL 119

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           E +R ++ E G++LA      FFETSA     +   F  LV  I  K S 
Sbjct: 120 EQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESM 169

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 89.6 bits (222), Expect = 5e-22
 Identities = 65/219 (29%), Positives = 101/219 (46%), Gaps = 43/219 (19%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+ +VGKTS L RY +  F    VSTVG  F +K    ++    + IWDTAG+E+
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRFKDT-VSTVGGAFYLKQWGPYN----ISIWDTAGREQ 56

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM---- 138
           +  + + Y RGA   IL YDV+N +S   ++D    +   + ++    +VGNK D+    
Sbjct: 57  FHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEG 116

Query: 139 ---------------EDERVISFERGKHLAE------------SLGVE--FFETSAKDNV 169
                          ED+R ++ E  K   +            S   E   FETSAK   
Sbjct: 117 ALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGY 176

Query: 170 NVKGVFERLVD----IICDKMSESLDSDPNLVAGPKGTR 204
           NV  +FE L +    +I  + +E+       V  P   R
Sbjct: 177 NVDELFEYLFNLVLPLILAQRAEANR-TQGTVNLPNPKR 214

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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. Length = 220

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 88.5 bits (219), Expect = 8e-22
 Identities = 53/180 (29%), Positives = 92/180 (51%), Gaps = 21/180 (11%)

Query: 27  IGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI 86
           +G+   GKT+F+ R+    F   +V+T+G++        +   ++  +WDTAGQE++  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 87  TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--- 143
              YY      I+M+DVT   ++ ++ +W   +     +N  ++L GNK D++D +V   
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKDRKVKAK 119

Query: 144 -ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNL--VAGP 200
            I+F R K+L      ++++ SAK N N +  F  L        +  L  DPNL  VA P
Sbjct: 120 SITFHRKKNL------QYYDISAKSNYNFEKPFLWL--------ARKLIGDPNLEFVAMP 165

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 83.7 bits (207), Expect = 2e-20
 Identities = 52/173 (30%), Positives = 93/173 (53%), Gaps = 14/173 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K + +G+ +VGKT  L  Y  ++F + +V TV  +F    V   +  V L +WDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNT-VNLGLWDTAGQED 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    YRGA  F+L + + ++ S+ ++ + WI +++ Y+     ++LVG K D+ D+
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYA-PGVPIVLVGTKLDLRDD 120

Query: 142 R----------VISFERGKHLAESLGVE-FFETSAKDNVNVKGVFERLVDIIC 183
           +           I+  +G+ L + +G   + E S+K   NVK VF+  + ++ 
Sbjct: 121 KQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL 173

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 83.1 bits (205), Expect = 4e-20
 Identities = 52/172 (30%), Positives = 90/172 (52%), Gaps = 16/172 (9%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  YA+D+F   +V TV  D    +V    K+  L ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQE 59

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V N  SF +++ +W+ ++K Y+  N   +L+G + D+ D
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPYLLIGTQIDLRD 118

Query: 141 ------------ERVISFERGKHLAESLGVE-FFETSAKDNVNVKGVFERLV 179
                       E+ I+ E+G+ LA+ +G   + E SA     +K VF+  +
Sbjct: 119 DPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAI 170

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 82.6 bits (204), Expect = 1e-19
 Identities = 49/166 (29%), Positives = 80/166 (48%), Gaps = 14/166 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKTS L+ +    F   +  TV  +  V       K V+L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYHPTV-FENYVTDCRVDGKPVQLALWDTAGQEE 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    Y  A   ++ + +   +S  +++  WI +++ Y   N  VILVG K D+  E
Sbjct: 62  YERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQE 120

Query: 142 ----------RVISFERGKHLAESLGVE-FFETSAKDNVNVKGVFE 176
                       +  ++ K +A ++G + + E SA     V  VFE
Sbjct: 121 AVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFE 166

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 80.7 bits (199), Expect = 6e-19
 Identities = 45/166 (27%), Positives = 82/166 (49%), Gaps = 12/166 (7%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+ + GKTS L  +    F   +  TV  ++ +  +F     V+L +WDTAGQE 
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENY-IHDIFVDGLAVELSLWDTAGQEE 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE 141
           +  + +  Y      +L + V N +S  +++  W+ +I+ +     +++LV  KCD+ + 
Sbjct: 61  FDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHC-PGVKLVLVALKCDLREP 119

Query: 142 R--------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERL 178
           R         IS+E G  +A+ +    + E SAK N  V   F   
Sbjct: 120 RNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEA 165

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 185

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 77.4 bits (191), Expect = 5e-18
 Identities = 40/165 (24%), Positives = 70/165 (42%), Gaps = 10/165 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGI---DFKVKTVFRHDKRVKLQIWDTAG 79
           KL+++G   VGKTS   +   + F     ST GI   D+K+       K+++L +WD  G
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPA--PERKKIRLNVWDFGG 60

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QE Y      +      ++L++D+   +  + +  W+ QIK +   +  VILVG   D  
Sbjct: 61  QEIYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQIKAFGGVSP-VILVGTHIDES 119

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
            +  I  +       ++  +    S K+   +      L   I  
Sbjct: 120 CDEDILKKALNKKFPAIINDIHFVSCKNGKGIA----ELKKAIAK 160

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 77.9 bits (192), Expect = 5e-18
 Identities = 51/170 (30%), Positives = 90/170 (52%), Gaps = 19/170 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQE 81
           K++++G+S  GKT+ L  +A DSF   +V TV  ++     F  DK R++L +WDT+G  
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENY--TASFEVDKQRIELSLWDTSGSP 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y  +   ++ +D++  E+  S+   W  +++ +   N  V+LVG K D+  
Sbjct: 61  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFC-PNTPVLLVGCKSDLRT 119

Query: 141 E------------RVISFERGKHLAESLG-VEFFETSAKDNVN-VKGVFE 176
           +              +S E+G++LA+ +G   + E SAK + N V+ VFE
Sbjct: 120 DLSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSENSVRDVFE 169

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 74.4 bits (183), Expect = 2e-17
 Identities = 32/117 (27%), Positives = 53/117 (45%), Gaps = 4/117 (3%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+++IG+   GK+S L +     F    +   G    V T+        L IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESF---TSIQDWITQIKTYSWDNAQVILVGNKC 136
            +     + + A   +L+YD+T+ ES    + +  W+  ++        VILVGNK 
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLG-GKIPVILVGNKL 116

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 77.1 bits (190), Expect = 2e-17
 Identities = 41/159 (25%), Positives = 77/159 (48%), Gaps = 1/159 (0%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++++++G+S VGK+S    +    +  +     G D   +TV    +   L ++D   QE
Sbjct: 1   YRVVLLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
               +  +  +    ++++Y VT+  SF    +   Q++     ++  +ILVGNK D+  
Sbjct: 61  DGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVR 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +S + G+  A     +F ETSA    NV  +FE +V
Sbjct: 121 SREVSVQEGRACAVVFDCKFIETSAALQHNVDELFEGIV 159

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 75.6 bits (186), Expect = 4e-17
 Identities = 48/168 (28%), Positives = 85/168 (50%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D+
Sbjct: 62  YDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 120

Query: 142 RV------------ISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
           +             I++ +G  +A+ +G V++ E SA     +K VF+
Sbjct: 121 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD 168

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 74.0 bits (182), Expect = 4e-16
 Identities = 47/172 (27%), Positives = 78/172 (45%), Gaps = 21/172 (12%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++++++G S VGKT+ + R+    F   +  T+  DF  K      +  +L I DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 82  -----RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-------DNAQV 129
                R  +I T    G + FIL++ + N ESF  +     QI            +N ++
Sbjct: 60  PFPAMRRLSILT----GDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKI 114

Query: 130 --ILVGNKCDMEDER-VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
             ++ GNK D +  R V   E  + +       +FE SAK N N+  +F  L
Sbjct: 115 PMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRAL 166

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 247

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 72.6 bits (178), Expect = 6e-16
 Identities = 47/163 (28%), Positives = 75/163 (46%), Gaps = 11/163 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV----GIDFKVKTVFRHDKRVKLQIWDTA 78
           +L+ +G + VGKT+ + R+  D+F      TV      +++V  V     +V + I DT+
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVEELHSKEYEVAGV-----KVTIDILDTS 55

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNA-QVILVGNKCD 137
           G   +  +     +    F L+Y V + ESF  ++    +I     D    +++VGNK D
Sbjct: 56  GSYSFPAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKID 115

Query: 138 MEDERVISFERGKHLAE-SLGVEFFETSAKDNVNVKGVFERLV 179
              ER +         E      F E SAKDN NV  VF+ L+
Sbjct: 116 SLAERQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELL 158

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 71.1 bits (174), Expect = 2e-15
 Identities = 49/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE 
Sbjct: 3   KCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQED 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    Y     F++ + V +  SF ++++ W+ +I  +       +LVG + D+ D+
Sbjct: 62  YDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDD 120

Query: 142 ------------RVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                       + I+ E G+ LA  L  V++ E SA     +K VF+
Sbjct: 121 PSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFD 168

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 70.4 bits (172), Expect = 4e-15
 Identities = 49/172 (28%), Positives = 87/172 (50%), Gaps = 18/172 (10%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR-VKLQIWDTAGQE 81
           K +++G+ +VGKT  L  Y  ++F   ++ TV  ++  +T    D R V L +WDTAGQE
Sbjct: 5   KCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV--DGRTVSLNLWDTAGQE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  + T  Y     FI+ + + +  S+ +++  W  ++  +   N  ++LVG K D+ +
Sbjct: 63  EYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEV-CHHCPNVPILLVGTKKDLRN 121

Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           +              I+ ++G  LA+ +  V++ E SA +   VK VF   V
Sbjct: 122 DADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAV 173

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 191

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 70.8 bits (173), Expect = 5e-15
 Identities = 49/169 (28%), Positives = 92/169 (54%), Gaps = 19/169 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQE 81
           K++++G++  GKT+ L  +A D++  ++V TV  ++     F  DK R++L +WDT+G  
Sbjct: 3   KIVVVGDTQCGKTALLHVFAKDNYPESYVPTVFENYTAS--FEIDKHRIELNMWDTSGSS 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDME- 139
            Y  +    Y  +   ++ +D++  E+  S+ + W  + + +   NA+++LVG K DM  
Sbjct: 61  YYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKLVLVGCKLDMRT 119

Query: 140 ---------DERVI--SFERGKHLAESLG-VEFFETSAKDNVN-VKGVF 175
                     +R+I  + E+G  LA  LG V + E S++ + N V+ VF
Sbjct: 120 DLSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSENSVRDVF 168

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 221

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 70.5 bits (172), Expect = 7e-15
 Identities = 44/157 (28%), Positives = 81/157 (51%), Gaps = 16/157 (10%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G+   GKT+ L   A D +   +V TV  ++    +   ++RV+L +WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPY 73

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTS-IQDWITQIKTYSWDNAQVILVGNKCDM--- 138
           Y  +    Y  +   +L +D++  E F S ++ W  +I  Y   + +++L+G K D+   
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYC-PSTRILLIGCKTDLRTD 132

Query: 139 ---------EDERVISFERGKHLAESLGVE-FFETSA 165
                    + +  IS+E+G  +A+ LG E + E SA
Sbjct: 133 LSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSA 169

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 67.8 bits (165), Expect = 4e-14
 Identities = 44/169 (26%), Positives = 88/169 (52%), Gaps = 19/169 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQE 81
           K++++G+S  GKT+ L  +A D F   +V TV  ++     F  D  R++L +WDT+G  
Sbjct: 7   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS--FEIDTQRIELSLWDTSGSP 64

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y  +   ++ +D++  E+  S+ + W  +I+ +   N +++LVG K D+  
Sbjct: 65  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT 123

Query: 141 ERV------------ISFERGKHLAESLGVE-FFETSAKDNVN-VKGVF 175
           +              +S+++G ++A+ +G   + E SA  + N V+ +F
Sbjct: 124 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 172

Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 60.7 bits (148), Expect = 9e-12
 Identities = 39/167 (23%), Positives = 72/167 (43%), Gaps = 19/167 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++L++G    GKT+ L++       +  + T+G  F V+TV    K VK  +WD  GQ++
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVVTT-IPTIG--FNVETV--EYKNVKFTVWDVGGQDK 55

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDE 141
            R +   YY    G I + D ++ E     ++ + ++        A ++++ NK D+   
Sbjct: 56  IRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGA 115

Query: 142 RVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVD 180
              S      L E LG+E            SA     +    + L++
Sbjct: 116 LTES-----ELIELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWLIE 157

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 52.3 bits (126), Expect = 8e-09
 Identities = 39/162 (24%), Positives = 75/162 (46%), Gaps = 16/162 (9%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT 85
           ++G  + GKT+ +   A   F+   + TVG  F ++ V +    V +++WD  GQ R+R+
Sbjct: 4   LVGLQNSGKTTLVNVIASGQFSEDTIPTVG--FNMRKVTK--GNVTIKVWDLGGQPRFRS 59

Query: 86  ITTAYYRGAMGFILMYDVTNEESF----TSIQDWITQIKTYSWDNAQVILVGNKCDMED- 140
           +   Y RG    + + D  + E        + D +   K  S +   ++++GNK D+   
Sbjct: 60  MWERYCRGVNAIVYVVDAADREKLEVAKNELHDLL--EKP-SLEGIPLLVLGNKNDLPGA 116

Query: 141 ---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
              + +I     K + +   V  +  SAK+  N+  V + L+
Sbjct: 117 LSVDELIEQMNLKSITDR-EVSCYSISAKEKTNIDIVLDWLI 157

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 50.4 bits (120), Expect = 7e-08
 Identities = 46/190 (24%), Positives = 80/190 (42%), Gaps = 38/190 (20%)

Query: 22  FKLLIIGNSSVGKTSFLFRYA------DDSFTSAFVSTV-GID--------FKVKTVFRH 66
            K +++G+++VGKT  +   A           +  V TV  ID         +       
Sbjct: 3   IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVD 62

Query: 67  DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWD 125
              V L++WDT G +  +    AY R  +  +L + + +  S  +++  W  +I+ +   
Sbjct: 63  GVSVSLRLWDTFG-DHDKDRRFAYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIRHFCPR 120

Query: 126 NAQVILVGNKCDME----DE---------------RVISFERGKHLAESLGVEFFETSAK 166
              VILVG K D+     DE                ++  E G+ +A+ LG+ ++ETS  
Sbjct: 121 -VPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVV 179

Query: 167 DNVNVKGVFE 176
               VK VF+
Sbjct: 180 TQFGVKDVFD 189

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature. Length = 195

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 49.8 bits (119), Expect = 1e-07
 Identities = 33/120 (27%), Positives = 59/120 (49%), Gaps = 5/120 (4%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDF-KVKTVFRHDKRVKLQIWDTAGQ 80
             ++++G  S GKT+ L+R   + F +  V T G +  K+K    + K V    WD  GQ
Sbjct: 4   LHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQ 62

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN--AQVILVGNKCDM 138
           E+ R +  +Y R   G + + D  + E     +  + +I  +S +N    V+++ NK D+
Sbjct: 63  EKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFS-ENQGVPVLVLANKQDL 121

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 49.0 bits (117), Expect = 1e-07
 Identities = 29/81 (35%), Positives = 45/81 (55%), Gaps = 7/81 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ+
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQD 64

Query: 82  RYRTITTAYYRGAMGFILMYD 102
           + R +   YY G  G I + D
Sbjct: 65  KIRPLWRHYYTGTQGLIFVVD 85

Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 49.9 bits (119), Expect = 3e-07
 Identities = 29/112 (25%), Positives = 53/112 (47%), Gaps = 17/112 (15%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV---------------FRHD 67
           ++L++G+S VGK+S +      S  +    T+G    VK +                  D
Sbjct: 23  RVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERD 82

Query: 68  KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
             V+L  WD +G ERY+   + +Y    G I ++D++   + TS+Q W +++
Sbjct: 83  FFVEL--WDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV 132

Length = 334

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 48.4 bits (115), Expect = 3e-07
 Identities = 30/120 (25%), Positives = 61/120 (50%), Gaps = 8/120 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++    +S T+  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 15  RILMVGLDAAGKTTILYKLKLGESVTT--IPTIG--FNVETV--TYKNISFTVWDVGGQD 68

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
           + R +   YY    G I + D  + +     ++ + + +      +A +++  NK D+ D
Sbjct: 69  KIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD 128

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 48.0 bits (115), Expect = 4e-07
 Identities = 29/122 (23%), Positives = 56/122 (45%), Gaps = 10/122 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G  + GKT+ L++       +  + T+G  F V+TV    K VK  +WD  GQE
Sbjct: 15  MRILILGLDNAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--TYKNVKFTVWDVGGQE 69

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ---DWITQIKTYSWDNAQVILVGNKCDM 138
             R +   Y+      I + D  + +     +     +   +  +  +A ++++ NK D+
Sbjct: 70  SLRPLWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELA--DAPLLILANKQDL 127

Query: 139 ED 140
             
Sbjct: 128 PG 129

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 48.3 bits (115), Expect = 5e-07
 Identities = 42/175 (24%), Positives = 75/175 (42%), Gaps = 22/175 (12%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD----- 76
            ++ ++G   VGKT+ + ++    F   ++ T         V    +   L I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 77  ----TAGQE----RYRTITTAYYRGAMGFILMYDVTNEESF---TSIQDWITQIKTYSWD 125
               TAGQE    R+R +     R +  FIL+YD+ + +SF     ++  I + +     
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 126 NAQVILVGNKCDMEDERVISFERGKHLA-ESLGVEFFETSAKDNVNVKGVFERLV 179
              +++VGNK D +  R         L  +S    + E SAK N ++  +F+ L+
Sbjct: 116 EPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELL 170

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 47.4 bits (113), Expect = 6e-07
 Identities = 32/119 (26%), Positives = 58/119 (48%), Gaps = 5/119 (4%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++L++G  S GK++ L++       +  + TVG  F V+ + + +K + L +WD  GQE+
Sbjct: 1   QVLLLGLDSAGKSTLLYKLKHAELVTT-IPTVG--FNVEML-QLEKHLSLTVWDVGGQEK 56

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            RT+   Y     G + + D ++E      Q  +  I K        V+L+ NK D+  
Sbjct: 57  MRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG 115

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 47.6 bits (113), Expect = 8e-07
 Identities = 37/170 (21%), Positives = 70/170 (41%), Gaps = 30/170 (17%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG--IDFKVKTVFR---HDKRVKLQIWDT 77
           K+L++G+S VGK+S +     +        TVG  +D +  T       +K   +++WD 
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 78  AGQ----ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ------------IKT 121
            G     E  ++    +Y    G I ++D+TN++S  ++  W  +            +  
Sbjct: 62  GGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVTN 121

Query: 122 YSWDNAQ-------VILVGNKCDM--EDERVISFERGKHLAESLGVEFFE 162
             +D+ Q       ++++G K D   E +R     R   L+E    E   
Sbjct: 122 GDYDSEQFAGNPVPLLVIGTKLDQIPEAKRNWVLTRTAFLSEDFNAEEIN 171

RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown. Length = 204

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 46.9 bits (112), Expect = 8e-07
 Identities = 43/160 (26%), Positives = 67/160 (41%), Gaps = 12/160 (7%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++++IG+  VGK+S +     + F    V  V  +  +      + RV   I DT+ + +
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEF-PENVPRVLPEITIPADVTPE-RVPTTIVDTSSRPQ 61

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE 141
            R    A  R A    L+Y V    +   I+  W+  I+        +ILVGNK D+ D 
Sbjct: 62  DRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRR-LGVKVPIILVGNKSDLRDG 120

Query: 142 RVISFERGKHLAESLGVEF------FETSAKDNVNVKGVF 175
              S    +     +  EF       E SAK  +NV  VF
Sbjct: 121 S--SQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVF 158

Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 168

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 47.0 bits (112), Expect = 9e-07
 Identities = 42/154 (27%), Positives = 66/154 (42%), Gaps = 21/154 (13%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV-GIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++LI+G    GKT+ L+R          V+T+  I F V+TV    K +K Q+WD  GQ 
Sbjct: 1   RILILGLDGAGKTTILYRLQ----VGEVVTTIPTIGFNVETV--TYKNLKFQVWDLGGQT 54

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D T+ +    S  +    ++     +A +++  NK DM  
Sbjct: 55  SIRPYWRCYYSNTDAIIYVVDSTDRDRLGISKSELHAMLEEEELKDAVLLVFANKQDMPG 114

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAK 166
               +      +AE LG+          F+TSA 
Sbjct: 115 ALSEA-----EVAEKLGLSELKDRTWQIFKTSAT 143

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 46.3 bits (110), Expect = 1e-06
 Identities = 43/160 (26%), Positives = 69/160 (43%), Gaps = 15/160 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL I+GN   GK++ + RY   S+     S  G  FK K V    +   L I D  G   
Sbjct: 2   KLGIVGNLRSGKSALVHRYLTGSYV-QLESPEGGRFK-KEVLVDGQSHLLLIRDEGGAPD 59

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ---VILVG--NKCD 137
            +     +       I ++ + +E SF ++     Q+ +Y   N     +ILVG  +   
Sbjct: 60  AQ-----FAGWVDAVIFVFSLEDEASFQTVYRLYHQLSSYR--NISEIPLILVGTQDAIS 112

Query: 138 MEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
             + RVI   R + L   +    ++ET A   +NV+ VF+
Sbjct: 113 ASNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQ 152

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues. GGAP has been shown to have high GTPase activity due to a direct intramolecular interaction between the N-terminal GTPase domain and the C-terminal ArfGAP domain. In human tissue, AGAP mRNA was detected in skeletal muscle, kidney, placenta, brain, heart, colon, and lung. Reduced expression levels were also observed in the spleen, liver, and small intestine. Length = 158

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 46.7 bits (111), Expect = 1e-06
 Identities = 40/172 (23%), Positives = 71/172 (41%), Gaps = 23/172 (13%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVS------------TVGIDFKVKTVFRHDKRV 70
           K+++IG    GKT+F+   +D                     TV +DF    +   D+  
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL---DEDT 68

Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI 130
            + ++ T GQER++ +     RGA+G I++ D +   +F + +     I   +  N   +
Sbjct: 69  GVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEI----IDFLTSRNPIPV 124

Query: 131 LVG-NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI 181
           +V  NK D+ D       R     E L V   E  A +    +G  ++L  +
Sbjct: 125 VVAINKQDLFDALPPEKIREALKLELLSVPVIEIDATEG---EGARDQLDVL 173

Length = 187

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 45.8 bits (108), Expect = 2e-06
 Identities = 29/118 (24%), Positives = 56/118 (47%), Gaps = 6/118 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           +++ +G    GKT+ LF+   D F    + T+G  F V+TV    K +K  IWD  G+ +
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFMQP-IPTIG--FNVETV--EYKNLKFTIWDVGGKHK 55

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDME 139
            R +   YY      + + D ++ +  +     + ++ T     +A +++  NK D+ 
Sbjct: 56  LRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVA 113

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 45.8 bits (109), Expect = 2e-06
 Identities = 27/121 (22%), Positives = 60/121 (49%), Gaps = 8/121 (6%)

Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +K++I+G  + GKT+ L+++   +   ++   T+G + +        K ++  +WD  GQ
Sbjct: 16  YKVIIVGLDNAGKTTILYQFLLGEVVHTS--PTIGSNVEEIVY----KNIRFLMWDIGGQ 69

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDME 139
           E  R+    YY      IL+ D T+ E     ++ + ++  +     A ++++ NK D++
Sbjct: 70  ESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLK 129

Query: 140 D 140
            
Sbjct: 130 G 130

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 44.2 bits (104), Expect = 9e-06
 Identities = 24/93 (25%), Positives = 46/93 (49%), Gaps = 7/93 (7%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV-GIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++          V+T+  I F V+TV    K +   +WD  GQ+
Sbjct: 19  RILMVGLDAAGKTTILYKLK----LGEIVTTIPTIGFNVETV--EYKNISFTVWDVGGQD 72

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD 114
           + R +   Y++   G I + D  + +     +D
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARD 105

Length = 181

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 43.9 bits (104), Expect = 1e-05
 Identities = 34/125 (27%), Positives = 57/125 (45%), Gaps = 14/125 (11%)

Query: 25  LIIGNSSVGKTSFLFRYADDSFT--------SAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           LI+G  + GKT+FL +     F+        S    TVG++     V     + +L  WD
Sbjct: 3   LILGLDNAGKTTFLEQ-TKTKFSKNYKGLNPSKITPTVGLNIGTIEV----GKARLMFWD 57

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNK 135
             GQE  R++   YY  + G I + D T+ E F   +    + I   + +   ++++ NK
Sbjct: 58  LGGQEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANK 117

Query: 136 CDMED 140
            D+ D
Sbjct: 118 QDLPD 122

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development. Length = 168

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 41/175 (23%), Positives = 75/175 (42%), Gaps = 21/175 (12%)

Query: 9   WQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK 68
           ++K+A         K++ +G  + GKT+ L    DD   +  V T+    +  T+     
Sbjct: 16  YKKEA---------KIVFLGLDNAGKTTLLHMLKDDR-LAQHVPTLHPTSEELTI----G 61

Query: 69  RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNA 127
            VK   +D  G E+ R +   Y+    G + + D  + E F   ++ +  +       N 
Sbjct: 62  NVKFTTFDLGGHEQARRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANV 121

Query: 128 QVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            ++++GNK D      +S E    L E+LG+    T  K  V++K    R V++ 
Sbjct: 122 PILILGNKIDKPGA--VSEEE---LREALGLYGTTTG-KGGVSLKVSNIRPVEVF 170

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 42.1 bits (99), Expect = 6e-05
 Identities = 30/118 (25%), Positives = 60/118 (50%), Gaps = 8/118 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV-GIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++          V+T+  I F V+TV    K +K  +WD  GQ+
Sbjct: 19  RILMVGLDAAGKTTILYKLK----LGEVVTTIPTIGFNVETV--EYKNLKFTMWDVGGQD 72

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDM 138
           + R +   YY+   G I + D  + E     ++ + ++ +     +A +++  NK D+
Sbjct: 73  KLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 41.6 bits (98), Expect = 6e-05
 Identities = 28/118 (23%), Positives = 58/118 (49%), Gaps = 8/118 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV-GIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++          V+T+  I F V+TV    K +   +WD  GQ+
Sbjct: 2   RILMVGLDAAGKTTILYKLK----LGEIVTTIPTIGFNVETV--EYKNISFTVWDVGGQD 55

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDM 138
           + R +   Y++   G I + D  + E     ++ + + +      +A +++  NK D+
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDL 113

The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA

 Score = 42.4 bits (101), Expect = 8e-05
 Identities = 24/87 (27%), Positives = 42/87 (48%), Gaps = 8/87 (9%)

Query: 102 DVTNEESFTSIQDW---ITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAES 155
           D++ E+    I+D+     ++K YS    +  + I+V NK D+ DE  +  E  K L E+
Sbjct: 244 DISPEDGSDPIEDYEIIRNELKKYSPELAEKPR-IVVLNKIDLLDEEEL-EELLKELKEA 301

Query: 156 LGVEFFETSAKDNVNVKGVFERLVDII 182
           LG   F  SA     +  +   L +++
Sbjct: 302 LGKPVFPISALTGEGLDELLYALAELL 328

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal [Protein synthesis, Other]. Length = 329

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 41.0 bits (97), Expect = 1e-04
 Identities = 46/175 (26%), Positives = 76/175 (43%), Gaps = 29/175 (16%)

Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF-RH--DKRVKLQIWDTAG- 79
           L+I G  +VGK+S +     +  T A        F  K++F  H   K ++ Q+ DT G 
Sbjct: 3   LVIAGYPNVGKSSLV-----NKLTRAKPEVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGI 57

Query: 80  -----QER----YRTITT-AYYRGAMGFILMYDVTNEESFTSIQDWIT---QIKTYSWDN 126
                +ER     + IT  A+ R A+ F +  D + E    SI++ ++   +IK     N
Sbjct: 58  LDRPLEERNTIEMQAITALAHLRAAVLFFI--DPS-ETCGYSIEEQLSLFKEIKPLF--N 112

Query: 127 AQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI 181
             VI+V NK D+  E  +S    +   E  G E  + S      V  +  +  ++
Sbjct: 113 KPVIVVLNKIDLLTEEDLS--EIEKELEKEGEEVIKISTLTEEGVDELKNKACEL 165

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins. Length = 167

>gnl|CDD|237046 PRK12297, obgE, GTPase CgtA; Reviewed

 Score = 38.5 bits (91), Expect = 0.002
 Identities = 18/87 (20%), Positives = 38/87 (43%), Gaps = 11/87 (12%)

Query: 102 DVTNEESFTSIQDWIT---QIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAES 155
           D++  E    I+D+     ++K Y+    +  Q++ V NK D+ +      E  +   E 
Sbjct: 245 DMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIV-VANKMDLPEAE----ENLEEFKEK 299

Query: 156 LGVEFFETSAKDNVNVKGVFERLVDII 182
           LG + F  SA     +  +   + +++
Sbjct: 300 LGPKVFPISALTGQGLDELLYAVAELL 326

Length = 424

>gnl|CDD|206685 cd01898, Obg, Obg GTPase

 Score = 37.4 bits (88), Expect = 0.002
 Identities = 15/62 (24%), Positives = 25/62 (40%), Gaps = 8/62 (12%)

Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
            I+V NK D+ D      +  + L E  G + F  SA             +D +  K+++
Sbjct: 117 RIVVLNKIDLLDAEERFEKLKELLKELKGKKVFPISALTGEG--------LDELLKKLAK 168

Query: 189 SL 190
            L
Sbjct: 169 LL 170

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain. Length = 170

>gnl|CDD|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 37.3 bits (87), Expect = 0.003
 Identities = 26/119 (21%), Positives = 47/119 (39%), Gaps = 9/119 (7%)

Query: 25  LIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERY 83
           L++G S  GKT+   +       S   S   I+  V + + +  K  KL + D  G E+ 
Sbjct: 4   LLLGPSDSGKTALFTKLTTGKVRSTVTS---IEPNVASFYSNSSKGKKLTLVDVPGHEKL 60

Query: 84  RTITTAYYRG-AMGFILMYD-VTNEESFTSIQDWITQIKTYSWDNAQVI---LVGNKCD 137
           R     Y +      + + D  T +++   + +++  I T        I   +  NK D
Sbjct: 61  RDKLLEYLKASLKAIVFVVDSATFQKNIRDVAEFLYDILTDLEKIKNKIPILIACNKQD 119

Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this type of cancer. Length = 202

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 37.2 bits (87), Expect = 0.003
 Identities = 41/169 (24%), Positives = 69/169 (40%), Gaps = 32/169 (18%)

Query: 23  KLLIIGNSSVGKTS-----FLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           K+L++G    GK+S     F      D  T    +T+ ++   ++  R    + L +WD 
Sbjct: 1   KVLLMGLRGSGKSSMRSIIFSNYSPRD--TLRLGATIDVE---QSHVRFLGNLTLNLWDC 55

Query: 78  AGQERYRTITTAYYR-------GAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNA 127
            GQ+ +        +       G + ++   DV +   EE   ++   I  +  YS  NA
Sbjct: 56  PGQDDFMENYLTRQKEHIFSNVGVLIYVF--DVESREYEEDLATLVKIIEALYQYS-PNA 112

Query: 128 QVILVGNKCDM--EDERVISFERGKHLAESL-------GVEFFETSAKD 167
           +V ++ +K D+  EDER   FE  K              + FF TS  D
Sbjct: 113 KVFVLIHKMDLLSEDERKEIFEDRKEEIIEEIEDFGIEDLTFFLTSIWD 161

GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B. Length = 230

>gnl|CDD|237048 PRK12299, obgE, GTPase CgtA; Reviewed

 Score = 37.0 bits (87), Expect = 0.004
 Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 130 ILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           ILV NK D+ DE     +R      +LG   F  SA     +    + L+  + + + E
Sbjct: 275 ILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGL----DELLRALWELLEE 329

Length = 335

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 36.6 bits (85), Expect = 0.004
 Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 5/87 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++L++G  + GKT+ L + A +  +     T G  F +K V       KL +WD  GQ +
Sbjct: 17  RILLLGLDNAGKTTILKQLASEDISHIT-PTQG--FNIKNVQADGF--KLNVWDIGGQRK 71

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESF 109
            R     Y+      I + D  + + F
Sbjct: 72  IRPYWRNYFENTDVLIYVIDSADRKRF 98

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	221
KOG0084|consensus	205		100.0
KOG0078|consensus	207		100.0
KOG0094|consensus	221		100.0
KOG0098|consensus	216		100.0
KOG0092|consensus	200		100.0
KOG0080|consensus	209		100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0093|consensus	193		100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0394|consensus	210		100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
KOG0086|consensus	214		100.0
PLN03110	216	Rab GTPase; Provisional	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
KOG0087|consensus	222		100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
KOG0079|consensus	198		100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
KOG0088|consensus	218		100.0
KOG0091|consensus	213		100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0081|consensus	219		100.0
PLN03108	210	Rab family protein; Provisional	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
KOG0095|consensus	213		100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
KOG0097|consensus	215		100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.98
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.98
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.98
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.98
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.98
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.97
KOG0083|consensus	192		99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
KOG4252|consensus	246		99.96
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.96
KOG0395|consensus	196		99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
KOG0393|consensus	198		99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.95
KOG0073|consensus	185		99.95
PTZ00099	176	rab6; Provisional	99.95
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
KOG0070|consensus	181		99.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.94
PRK12299	335	obgE GTPase CgtA; Reviewed	99.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.93
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.93
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.93
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.92
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.92
PRK04213	201	GTP-binding protein; Provisional	99.91
COG1100	219	GTPase SAR1 and related small G proteins [General	99.91
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.91
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.91
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.91
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.91
KOG0071|consensus	180		99.91
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.91
KOG0075|consensus	186		99.9
PRK15494	339	era GTPase Era; Provisional	99.9
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.9
PRK12297	424	obgE GTPase CgtA; Reviewed	99.9
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.9
PRK12296	500	obgE GTPase CgtA; Reviewed	99.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.89
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.89
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.89
KOG3883|consensus	198		99.89
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.89
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.89
cd00881	189	GTP_translation_factor GTP translation factor fami	99.89
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.89
PRK03003	472	GTP-binding protein Der; Reviewed	99.89
PRK11058	426	GTPase HflX; Provisional	99.89
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.88
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.88
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.88
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.88
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.87
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.87
PRK12298	390	obgE GTPase CgtA; Reviewed	99.87
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.87
KOG0096|consensus	216		99.87
PRK00089	292	era GTPase Era; Reviewed	99.87
CHL00189	742	infB translation initiation factor 2; Provisional	99.86
KOG1673|consensus	205		99.86
PRK05306	787	infB translation initiation factor IF-2; Validated	99.86
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.86
KOG0074|consensus	185		99.86
KOG0076|consensus	197		99.85
PRK05433	600	GTP-binding protein LepA; Provisional	99.85
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.85
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.85
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.85
COG1159	298	Era GTPase [General function prediction only]	99.85
PRK00093	435	GTP-binding protein Der; Reviewed	99.85
PRK00093	435	GTP-binding protein Der; Reviewed	99.84
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.84
KOG4423|consensus	229		99.84
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.84
KOG0072|consensus	182		99.84
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.84
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.84
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.83
COG2229	187	Predicted GTPase [General function prediction only	99.83
PRK12317	425	elongation factor 1-alpha; Reviewed	99.83
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.83
COG1160	444	Predicted GTPases [General function prediction onl	99.82
PRK10218	607	GTP-binding protein; Provisional	99.82
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.82
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.82
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.82
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.82
COG1160	444	Predicted GTPases [General function prediction onl	99.81
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.81
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.81
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.8
COG0486	454	ThdF Predicted GTPase [General function prediction	99.8
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.8
PRK04004	586	translation initiation factor IF-2; Validated	99.8
COG2262	411	HflX GTPases [General function prediction only]	99.8
KOG1489|consensus	366		99.79
KOG1423|consensus	379		99.79
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.79
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.79
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.78
COG0218	200	Predicted GTPase [General function prediction only	99.78
PRK12736	394	elongation factor Tu; Reviewed	99.78
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.78
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.78
PRK12735	396	elongation factor Tu; Reviewed	99.78
COG1084	346	Predicted GTPase [General function prediction only	99.77
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.77
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.76
KOG0077|consensus	193		99.75
COG0536	369	Obg Predicted GTPase [General function prediction	99.75
CHL00071	409	tufA elongation factor Tu	99.74
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.74
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.73
PLN03126	478	Elongation factor Tu; Provisional	99.73
KOG0462|consensus	650		99.73
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.72
KOG1707|consensus	625		99.72
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.72
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.72
PRK00049	396	elongation factor Tu; Reviewed	99.71
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.71
PLN00043	447	elongation factor 1-alpha; Provisional	99.71
KOG1490|consensus	620		99.71
KOG1145|consensus	683		99.71
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.71
PLN03127	447	Elongation factor Tu; Provisional	99.7
COG1163	365	DRG Predicted GTPase [General function prediction	99.7
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.69
PTZ00141	446	elongation factor 1- alpha; Provisional	99.69
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.69
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.68
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.68
PRK13351	687	elongation factor G; Reviewed	99.68
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.68
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.67
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.67
KOG1191|consensus	531		99.66
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.66
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.66
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.63
PRK12739	691	elongation factor G; Reviewed	99.63
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.63
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.62
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.6
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.6
COG3596	296	Predicted GTPase [General function prediction only	99.6
PRK00007	693	elongation factor G; Reviewed	99.6
PRK09602	396	translation-associated GTPase; Reviewed	99.58
PRK09866	741	hypothetical protein; Provisional	99.58
PRK12740	668	elongation factor G; Reviewed	99.54
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.51
KOG0090|consensus	238		99.51
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.51
PRK14845	1049	translation initiation factor IF-2; Provisional	99.51
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.48
PTZ00258	390	GTP-binding protein; Provisional	99.46
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.46
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.45
KOG1707|consensus	625		99.45
KOG3905|consensus	473		99.45
KOG1144|consensus	1064		99.44
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.44
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.44
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.44
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.42
PRK13768	253	GTPase; Provisional	99.42
KOG0410|consensus	410		99.4
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.4
PRK07560	731	elongation factor EF-2; Reviewed	99.4
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.39
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.39
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.38
PRK09601	364	GTP-binding protein YchF; Reviewed	99.38
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.37
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.37
KOG1532|consensus	366		99.37
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.36
KOG0458|consensus	603		99.36
PTZ00416	836	elongation factor 2; Provisional	99.35
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.35
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.35
KOG0461|consensus	522		99.32
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.32
KOG0705|consensus	749		99.29
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.29
KOG0082|consensus	354		99.28
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.28
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.27
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.26
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.26
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.22
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.22
KOG1486|consensus	364		99.21
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.19
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.18
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.17
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.16
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.14
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.13
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.12
KOG3886|consensus	295		99.1
KOG1954|consensus	532		99.08
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.07
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.06
KOG0468|consensus	971		99.04
PRK12289	352	GTPase RsgA; Reviewed	99.0
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.99
KOG1487|consensus	358		98.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	98.97
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.95
KOG1547|consensus	336		98.95
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.95
PRK00098	298	GTPase RsgA; Reviewed	98.95
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.95
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.93
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.92
PRK12288	347	GTPase RsgA; Reviewed	98.86
KOG2655|consensus	366		98.86
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.83
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.8
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.76
KOG1143|consensus	591		98.76
KOG0099|consensus	379		98.75
KOG2486|consensus	320		98.75
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.74
KOG1491|consensus	391		98.73
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.71
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.71
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.69
KOG0460|consensus	449		98.69
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.69
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.67
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.66
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.65
KOG0463|consensus	641		98.65
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.64
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.63
KOG3887|consensus	347		98.63
COG1161	322	Predicted GTPases [General function prediction onl	98.62
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.61
KOG0466|consensus	466		98.6
KOG0467|consensus	887		98.58
KOG0085|consensus	359		98.56
KOG0448|consensus	749		98.55
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.53
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.51
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.51
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.5
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.47
KOG0464|consensus	753		98.47
KOG0447|consensus	980		98.44
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.42
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.41
PRK01889	356	GTPase RsgA; Reviewed	98.4
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.4
PRK10416	318	signal recognition particle-docking protein FtsY;	98.39
PRK13796	365	GTPase YqeH; Provisional	98.35
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.32
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.32
PRK14974	336	cell division protein FtsY; Provisional	98.32
KOG0459|consensus	501		98.31
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.28
PRK13796	365	GTPase YqeH; Provisional	98.28
KOG1424|consensus	562		98.26
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.26
COG1162	301	Predicted GTPases [General function prediction onl	98.25
PRK12288	347	GTPase RsgA; Reviewed	98.24
cd03112	158	CobW_like The function of this protein family is u	98.23
PRK12289	352	GTPase RsgA; Reviewed	98.23
KOG0465|consensus	721		98.23
PRK13695	174	putative NTPase; Provisional	98.2
KOG4273|consensus	418		98.16
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.12
COG1162	301	Predicted GTPases [General function prediction onl	98.09
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.02
COG3523	1188	IcmF Type VI protein secretion system component Va	98.01
KOG3859|consensus	406		98.01
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	97.99
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.97
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.97
PRK00098	298	GTPase RsgA; Reviewed	97.96
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.88
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.85
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.84
KOG2484|consensus	435		97.83
TIGR00959	428	ffh signal recognition particle protein. This mode	97.82
cd03114	148	ArgK-like The function of this protein family is u	97.77
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.77
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.76
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.76
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.75
KOG2485|consensus	335		97.74
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.73
PRK10867	433	signal recognition particle protein; Provisional	97.73
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.72
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.72
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.7
COG0523	323	Putative GTPases (G3E family) [General function pr	97.68
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.63
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.59
KOG0469|consensus	842		97.58
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.52
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.49
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.49
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	97.47
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.45
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.44
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.43
PRK08118	167	topology modulation protein; Reviewed	97.38
cd03111	106	CpaE_like This protein family consists of proteins	97.38
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.35
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.34
PRK10646	153	ADP-binding protein; Provisional	97.33
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.33
cd03110	179	Fer4_NifH_child This protein family's function is	97.32
PRK07261	171	topology modulation protein; Provisional	97.32
KOG1534|consensus	273		97.32
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.31
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	97.3
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.3
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	97.24
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.24
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.23
KOG2423|consensus	572		97.2
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.19
PRK14737	186	gmk guanylate kinase; Provisional	97.16
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.16
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.15
COG3845	501	ABC-type uncharacterized transport systems, ATPase	97.14
COG0802	149	Predicted ATPase or kinase [General function predi	97.14
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.11
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.09
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.06
cd02036	179	MinD Bacterial cell division requires the formatio	97.05
PRK14738	206	gmk guanylate kinase; Provisional	97.04
smart00382	148	AAA ATPases associated with a variety of cellular	97.04
PF00004	132	AAA: ATPase family associated with various cellula	97.03
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.0
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.95
KOG1533|consensus	290		96.94
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.94
PRK04195	482	replication factor C large subunit; Provisional	96.93
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.92
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.92
PRK06217	183	hypothetical protein; Validated	96.91
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.91
PRK03839	180	putative kinase; Provisional	96.91
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.91
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.9
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.89
PRK01889	356	GTPase RsgA; Reviewed	96.87
KOG0780|consensus	483		96.87
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.87
PRK14530	215	adenylate kinase; Provisional	96.87
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	96.86
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.86
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.86
PRK13949	169	shikimate kinase; Provisional	96.85
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.85
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.84
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.83
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.81
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.81
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.81
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.8
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.8
KOG3929|consensus	363		96.78
KOG1424|consensus	562		96.77
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	96.77
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.76
PRK05480	209	uridine/cytidine kinase; Provisional	96.76
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.76
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.74
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	96.74
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.73
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.73
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.72
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.72
COG4559	259	ABC-type hemin transport system, ATPase component	96.72
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.72
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.72

>KOG0084|consensus

Probab=100.00  E-value=1.6e-42  Score=247.95  Aligned_cols=178  Identities=48%  Similarity=0.904  Sum_probs=169.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      ..++|.+||+|+|+.|+|||+|+.||.++.|...+..|+|+++..+++..+++.+.+++|||+|+++|+.+...++++|+
T Consensus         4 ~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ah   83 (205)
T KOG0084|consen    4 PEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAH   83 (205)
T ss_pred             cccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCC
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCe-EEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVE-FFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~~l  174 (221)
                      +||+|||+++.+||.++..|+.++.++...++|.++|+||+|+.+.+.++.++++.|+..++++ ++++||+++.++++.
T Consensus        84 Gii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~  163 (205)
T KOG0084|consen   84 GIIFVYDITKQESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDA  163 (205)
T ss_pred             eEEEEEEcccHHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998 999999999999999


Q ss_pred             HHHHHHHHHHhhccccCCC
Q psy2300         175 FERLVDIICDKMSESLDSD  193 (221)
Q Consensus       175 ~~~i~~~~~~~~~~~~~~~  193 (221)
                      |..|...+.+++.......
T Consensus       164 F~~la~~lk~~~~~~~~~~  182 (205)
T KOG0084|consen  164 FLTLAKELKQRKGLHVKWS  182 (205)
T ss_pred             HHHHHHHHHHhcccCCCCC
Confidence            9999999998875444333

>KOG0078|consensus

Probab=100.00  E-value=1.1e-39  Score=236.65  Aligned_cols=176  Identities=56%  Similarity=0.983  Sum_probs=169.3

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR   92 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   92 (221)
                      +...++++.+||+++|+++||||+|+.+|..+.|...+..|+|+++...++..++..+.+++|||+|++++..+...|++
T Consensus         4 ~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyr   83 (207)
T KOG0078|consen    4 MAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYR   83 (207)
T ss_pred             cccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHh
Confidence            34458899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+++++|||+++..||+++..|+..+.++...++|.++|+||+|+...+.++.+..+.++..+|+.++++||++|.||+
T Consensus        84 gA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~  163 (207)
T KOG0078|consen   84 GAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIE  163 (207)
T ss_pred             hcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHH
Confidence            99999999999999999999999999999998899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcc
Q psy2300         173 GVFERLVDIICDKMSE  188 (221)
Q Consensus       173 ~l~~~i~~~~~~~~~~  188 (221)
                      +.|-.|.+.+.+++..
T Consensus       164 eaF~~La~~i~~k~~~  179 (207)
T KOG0078|consen  164 EAFLSLARDILQKLED  179 (207)
T ss_pred             HHHHHHHHHHHhhcch
Confidence            9999999999987644

>KOG0094|consensus

Probab=100.00  E-value=1.9e-39  Score=231.43  Aligned_cols=171  Identities=39%  Similarity=0.684  Sum_probs=160.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..-..+||+|+|+.++||||||+||+.+.|...|.+|+|+++...++.+.+..+++++|||+|+++|+.+...|++++.+
T Consensus        18 ~~~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~v   97 (221)
T KOG0094|consen   18 APLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSV   97 (221)
T ss_pred             ccceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeE
Confidence            33456999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCC-CCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~-~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +|+|||+++..||++...|+..+...... ++-+++|+||.||.+.++++.++....+++++..|.++||+.|.||.++|
T Consensus        98 aviVyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lF  177 (221)
T KOG0094|consen   98 AVIVYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLF  177 (221)
T ss_pred             EEEEEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHH
Confidence            99999999999999999999999877654 47899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy2300         176 ERLVDIICDKMS  187 (221)
Q Consensus       176 ~~i~~~~~~~~~  187 (221)
                      ..|...+.....
T Consensus       178 rrIaa~l~~~~~  189 (221)
T KOG0094|consen  178 RRIAAALPGMEV  189 (221)
T ss_pred             HHHHHhccCccc
Confidence            998877776654

>KOG0098|consensus

Probab=100.00  E-value=2e-39  Score=229.59  Aligned_cols=177  Identities=40%  Similarity=0.740  Sum_probs=167.5

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+.+.+|++++|+.|+|||+|+.+|++..|.+.+..|+|+++....+++++..+++++|||+|++.+.++...|++.+.+
T Consensus         2 ~~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~G   81 (216)
T KOG0098|consen    2 SYAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAG   81 (216)
T ss_pred             CccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcc
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||++.+++|.++..|+..+.++...+..++|++||+||...+.++.++.+.|++.+++.++++||++++|+++.|.
T Consensus        82 alLVydit~r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~  161 (216)
T KOG0098|consen   82 ALLVYDITRRESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFI  161 (216)
T ss_pred             eEEEEEccchhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHH
Confidence            99999999999999999999999999888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccccCCC
Q psy2300         177 RLVDIICDKMSESLDSD  193 (221)
Q Consensus       177 ~i~~~~~~~~~~~~~~~  193 (221)
                      .+...+.+....-...+
T Consensus       162 nta~~Iy~~~q~g~~~~  178 (216)
T KOG0098|consen  162 NTAKEIYRKIQDGVFDD  178 (216)
T ss_pred             HHHHHHHHHHHhccccc
Confidence            99999988765444333

>KOG0092|consensus

Probab=100.00  E-value=2.7e-39  Score=230.60  Aligned_cols=172  Identities=39%  Similarity=0.702  Sum_probs=162.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|..++|||||+.||..+.|.....+|+|..+...++.+++..+.+.||||+|+++|..+...|+++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            35799999999999999999999999998888999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|||+++.+||..++.|+..+.+...++..+.+++||+||.+.+.+..++++.++...++.+|++||++|.|++++|..|
T Consensus        83 vvYDit~~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~I  162 (200)
T KOG0092|consen   83 VVYDITDEESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAI  162 (200)
T ss_pred             EEEecccHHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHH
Confidence            99999999999999999999999887788899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcccc
Q psy2300         179 VDIICDKMSESL  190 (221)
Q Consensus       179 ~~~~~~~~~~~~  190 (221)
                      .+.+........
T Consensus       163 a~~lp~~~~~~~  174 (200)
T KOG0092|consen  163 AEKLPCSDPQER  174 (200)
T ss_pred             HHhccCcccccc
Confidence            999887765444

>KOG0080|consensus

Probab=100.00  E-value=3.1e-38  Score=218.24  Aligned_cols=203  Identities=41%  Similarity=0.683  Sum_probs=175.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      ..+++.+||+++|+.|+|||||+.+|..+.|.+....|+|+++.++.+.+++..+.+.||||+|+++|+.+...|++++.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            34568899999999999999999999999999998889999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++|+|||++.+++|..+..|+.++..++ .+++..++|+||+|.+..+.++.++...|++.+++-++++||++.+|+...
T Consensus        86 GiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~  165 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCC  165 (209)
T ss_pred             eeEEEEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHH
Confidence            9999999999999999999999998887 456778999999999888999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccccCCCCCCCCCCCCCccccCCCCCCCCCCCCCC
Q psy2300         175 FERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNCNC  221 (221)
Q Consensus       175 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  221 (221)
                      |+.+...|.+--....+  .+...+..-.+ .+..+...++-.+|.|
T Consensus       166 FeelveKIi~tp~l~~~--~n~~~~~~i~~-~p~~~~~~~~g~~Cs~  209 (209)
T KOG0080|consen  166 FEELVEKIIETPSLWEE--GNSSAGLDIAS-DPDGEASAHQGGCCSC  209 (209)
T ss_pred             HHHHHHHHhcCcchhhc--cCCcccccccc-CCCcccccccCCccCC
Confidence            99999998875433222  22322332222 2223445666778877

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=1e-36  Score=228.94  Aligned_cols=165  Identities=50%  Similarity=0.868  Sum_probs=151.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +.|+++|..|+|||||+++|..+.|...+.+|.+.++....+.+++..+.+.+|||+|++.+..++..+++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            36899999999999999999999998888899998888888888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-CCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |++++++|+++..|+..+......+.|+++|+||+|+...+.+..++...+++.+ ++.+++|||++|.|++++|++|++
T Consensus        81 Dvtd~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~  160 (202)
T cd04120          81 DITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVD  160 (202)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999999987776678999999999999877888888888888775 789999999999999999999999


Q ss_pred             HHHHhh
Q psy2300         181 IICDKM  186 (221)
Q Consensus       181 ~~~~~~  186 (221)
                      .+.+..
T Consensus       161 ~~~~~~  166 (202)
T cd04120         161 DILKKM  166 (202)
T ss_pred             HHHHhC
Confidence            887653

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. 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. 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

>KOG0093|consensus

Probab=100.00  E-value=1.1e-37  Score=212.43  Aligned_cols=187  Identities=87%  Similarity=1.314  Sum_probs=177.7

Q ss_pred             CcchhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300           5 GETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ....++.....+..++.+|++++|...+|||||+.++++..|...+..|.|+++..+++....+.+.+++|||.|++.|+
T Consensus         5 ~~~~~~~~s~dqnFDymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryr   84 (193)
T KOG0093|consen    5 DSYGASKDSIDQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYR   84 (193)
T ss_pred             ccCCCccccccccccceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhh
Confidence            34557788889999999999999999999999999999999999999999999999999888888999999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEe
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETS  164 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  164 (221)
                      .+...++++++++|++||+++.+||..++.|.-.++.++..+.|+|+++||||++..+.++.+..+.++..+|+.+|++|
T Consensus        85 tiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtS  164 (193)
T KOG0093|consen   85 TITTAYYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETS  164 (193)
T ss_pred             HHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhc
Confidence            99999999999999999999999999999999999999889999999999999999999999999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhccccC
Q psy2300         165 AKDNVNVKGVFERLVDIICDKMSESLD  191 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~~~~~~  191 (221)
                      |+.+.|+.++|+.+...+.+++.++.+
T Consensus       165 aK~NinVk~~Fe~lv~~Ic~kmsesl~  191 (193)
T KOG0093|consen  165 AKENINVKQVFERLVDIICDKMSESLD  191 (193)
T ss_pred             ccccccHHHHHHHHHHHHHHHhhhhhc
Confidence            999999999999999999999876654

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=1.3e-36  Score=226.28  Aligned_cols=169  Identities=40%  Similarity=0.678  Sum_probs=155.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .++.+||+|+|..|+|||||+.+|..+.+...+.++.+.++....+.+++..+.+.+||++|++.|..++..+++.+|++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            45779999999999999999999999988888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |+|||++++.+|+++..|+..+.... ++.|++||+||.|+.+.+.++.++++.+++..++.+++|||++|.|++++|++
T Consensus        83 llVfD~t~~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~  161 (189)
T cd04121          83 ILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTE  161 (189)
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999999999997765 68999999999999887788889999999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy2300         178 LVDIICDKMS  187 (221)
Q Consensus       178 i~~~~~~~~~  187 (221)
                      |.+.+..+..
T Consensus       162 l~~~i~~~~~  171 (189)
T cd04121         162 LARIVLMRHG  171 (189)
T ss_pred             HHHHHHHhcC
Confidence            9998876553

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. 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 d

>KOG0394|consensus

Probab=100.00  E-value=1.8e-37  Score=219.29  Aligned_cols=169  Identities=36%  Similarity=0.673  Sum_probs=157.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|++|+|||||++++.+.+|...+..|+|.++-.+.+.+++..+.+++|||+|+++|.++...+++++|.++
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCv   86 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCV   86 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEE
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCC----CCCcEEEEEeCCCCCC--CcccCHHHHHHHHHHhC-CeEEEEecCCCCCH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSW----DNAQVILVGNKCDMED--ERVISFERGKHLAESLG-VEFFETSAKDNVNV  171 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~----~~~p~ivv~nK~Dl~~--~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi  171 (221)
                      +|||++++.+|+.+..|...+.....    ...|+||++||+|+++  .++++...++.||...+ ++||++|||...|+
T Consensus        87 lvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV  166 (210)
T KOG0394|consen   87 LVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNV  166 (210)
T ss_pred             EEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccH
Confidence            99999999999999999999877663    4678999999999976  37899999999999886 79999999999999


Q ss_pred             HHHHHHHHHHHHHhhc
Q psy2300         172 KGVFERLVDIICDKMS  187 (221)
Q Consensus       172 ~~l~~~i~~~~~~~~~  187 (221)
                      ++.|+.+.+..+....
T Consensus       167 ~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  167 DEAFEEIARRALANED  182 (210)
T ss_pred             HHHHHHHHHHHHhccc
Confidence            9999999998887654

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=4e-36  Score=226.67  Aligned_cols=168  Identities=34%  Similarity=0.644  Sum_probs=150.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+.++....+..+ +..+.+.+|||+|++.+..++..+++.+|++|+|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999999888888999988887777777 6788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCCHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~  175 (221)
                      ||++++.+|+.+..|+..+....    ..+.|++||+||+|+...+.+..++...+++..+ ..++++||++|.|++++|
T Consensus        81 ~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f  160 (201)
T cd04107          81 FDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAM  160 (201)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHH
Confidence            99999999999999988876432    2578999999999997666778888999999988 589999999999999999


Q ss_pred             HHHHHHHHHhhccc
Q psy2300         176 ERLVDIICDKMSES  189 (221)
Q Consensus       176 ~~i~~~~~~~~~~~  189 (221)
                      ++|++.+.+.....
T Consensus       161 ~~l~~~l~~~~~~~  174 (201)
T cd04107         161 RFLVKNILANDKNL  174 (201)
T ss_pred             HHHHHHHHHhchhh
Confidence            99999988765433

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. 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.

>KOG0086|consensus

Probab=100.00  E-value=5.5e-37  Score=210.47  Aligned_cols=207  Identities=36%  Similarity=0.660  Sum_probs=181.3

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      .+.+++.+|++++|+.|+|||.|+.+|..++|......|+|+++....+.+.++.+.++||||.|+++|++..+.|++++
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      .+.++|||++++++|+.+.+|+........++.-+++++||.||.++++++..++..|+....+.+.++|+++|+|+++.
T Consensus        83 AGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEa  162 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEA  162 (214)
T ss_pred             cceEEEEeccchhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHH
Confidence            99999999999999999999999998888888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccccCCCCCCCCCCC----CCccccCCC-CCCCCCCCCCC
Q psy2300         175 FERLVDIICDKMSESLDSDPNLVAGPK----GTRLTEQPQ-RNNPINPNCNC  221 (221)
Q Consensus       175 ~~~i~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~-~~~~~~~~c~~  221 (221)
                      |-...+.+..+...-....++...+-.    +..-...++ ....-++.|+|
T Consensus       163 Fl~c~~tIl~kIE~GElDPer~gsGIQYGdaslR~l~~p~s~r~~n~~~c~C  214 (214)
T KOG0086|consen  163 FLKCARTILNKIESGELDPERMGSGIQYGDASLRQLRQPRSARAVNPQPCGC  214 (214)
T ss_pred             HHHHHHHHHHHHhhcCCCHHHcccccccchhhhhccCCcchhccCCCCCCCC
Confidence            999999888776544444445544432    222222222 23444778998

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=1.6e-35  Score=225.40  Aligned_cols=172  Identities=41%  Similarity=0.763  Sum_probs=156.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.+||+++|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            45688999999999999999999999999887888999999888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||++++.+|+.+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|+
T Consensus        88 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~  167 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQ  167 (216)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999998877656899999999999987777777888888888899999999999999999999


Q ss_pred             HHHHHHHHhhcc
Q psy2300         177 RLVDIICDKMSE  188 (221)
Q Consensus       177 ~i~~~~~~~~~~  188 (221)
                      +|++.+.+....
T Consensus       168 ~l~~~i~~~~~~  179 (216)
T PLN03110        168 TILLEIYHIISK  179 (216)
T ss_pred             HHHHHHHHHhhc
Confidence            999998876443

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=1.4e-35  Score=223.23  Aligned_cols=173  Identities=47%  Similarity=0.878  Sum_probs=155.1

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      +++.+||+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..++++
T Consensus         3 ~~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~i   82 (199)
T cd04110           3 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGV   82 (199)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEE
Confidence            35689999999999999999999999998888889998888888888888888999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|||++++++|+.+..|+..+.... ...|++||+||+|+.....+..++...++...++.++++||++|.|++++|++
T Consensus        83 ilv~D~~~~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          83 IVVYDVTNGESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHH
Confidence            99999999999999999999987654 57899999999999877777778888888888999999999999999999999


Q ss_pred             HHHHHHHhhccccC
Q psy2300         178 LVDIICDKMSESLD  191 (221)
Q Consensus       178 i~~~~~~~~~~~~~  191 (221)
                      |.+.+.+.......
T Consensus       162 l~~~~~~~~~~~~~  175 (199)
T cd04110         162 ITELVLRAKKDNLA  175 (199)
T ss_pred             HHHHHHHhhhccCc
Confidence            99999877654433

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. 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

>KOG0087|consensus

Probab=100.00  E-value=8.3e-36  Score=215.60  Aligned_cols=179  Identities=42%  Similarity=0.758  Sum_probs=169.5

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      ....+++.+||+++|++++|||-|+.||..+.|..+..+|+|+++....+.++++.+..+||||+|+++|+.+...|+++
T Consensus         7 ~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrg   86 (222)
T KOG0087|consen    7 KSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRG   86 (222)
T ss_pred             CccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcc
Confidence            34678899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      +.++++|||++.+.+|+++..|+.++..+...+.++++|+||+||.+.+.+..++.+.+++..++.++++||..+.|+++
T Consensus        87 AvGAllVYDITr~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~  166 (222)
T KOG0087|consen   87 AVGALLVYDITRRQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEK  166 (222)
T ss_pred             cceeEEEEechhHHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHH
Confidence            99999999999999999999999999999999999999999999999899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccccCC
Q psy2300         174 VFERLVDIICDKMSESLDS  192 (221)
Q Consensus       174 l~~~i~~~~~~~~~~~~~~  192 (221)
                      .|+.++..|.+...+....
T Consensus       167 aF~~~l~~I~~~vs~k~~~  185 (222)
T KOG0087|consen  167 AFERVLTEIYKIVSKKQLD  185 (222)
T ss_pred             HHHHHHHHHHHHHHHHhhh
Confidence            9999999888776555433

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=6e-35  Score=213.89  Aligned_cols=164  Identities=36%  Similarity=0.741  Sum_probs=150.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|++|+|||||+++|..+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++|+|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            48999999999999999999999998888888888888777777888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ||++++.+|+.+..|+..+.....++.|+++|+||+|+.+.+.++.++...+++..+++++++||++|.|++++|.++.+
T Consensus        82 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~  161 (166)
T cd04122          82 YDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAK  161 (166)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999887766668999999999999887778888899999988999999999999999999999998


Q ss_pred             HHHH
Q psy2300         181 IICD  184 (221)
Q Consensus       181 ~~~~  184 (221)
                      .+.+
T Consensus       162 ~~~~  165 (166)
T cd04122         162 KIYQ  165 (166)
T ss_pred             HHhh
Confidence            7754

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of 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 GT

>KOG0079|consensus

Probab=100.00  E-value=2.7e-36  Score=205.85  Aligned_cols=169  Identities=49%  Similarity=0.892  Sum_probs=161.6

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .++..++.+++|++|+|||+|+.+|..+.|...|..|+|+++.+.++.+++..+.++|||++|++.|+.+...++++.++
T Consensus         4 ~~dhLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthg   83 (198)
T KOG0079|consen    4 DYDHLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHG   83 (198)
T ss_pred             cHHHHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCce
Confidence            34567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|||+++.+||.+...|+..+...+ +..|-++|+||.|.++.+.+..++++.|+...++.+|++|++..+|++.+|.
T Consensus        84 v~vVYDVTn~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~  162 (198)
T KOG0079|consen   84 VIVVYDVTNGESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFH  162 (198)
T ss_pred             EEEEEECcchhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHH
Confidence            999999999999999999999998876 6899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      -|.+.+.+..
T Consensus       163 cit~qvl~~k  172 (198)
T KOG0079|consen  163 CITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHHH
Confidence            9999888776

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=2e-34  Score=220.04  Aligned_cols=172  Identities=27%  Similarity=0.530  Sum_probs=151.6

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      ++....+||+++|+.|+|||+|+++|..+.|...+.||.+..+. ..+.+++..+.+.||||+|++.|..++..+++++|
T Consensus         8 ~~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad   86 (232)
T cd04174           8 QPLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSD   86 (232)
T ss_pred             cCceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCc
Confidence            34456899999999999999999999999999899999886664 45777888999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC-eEE
Q psy2300          96 GFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV-EFF  161 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~  161 (221)
                      ++|+|||++++.+|.++ ..|+..+.... ++.|++||+||+|+.+            .+.++.++.+.+++.+++ .|+
T Consensus        87 ~vIlVyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~  165 (232)
T cd04174          87 AVLLCFDISRPETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYL  165 (232)
T ss_pred             EEEEEEECCChHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEE
Confidence            99999999999999985 78999987765 5789999999999964            356888999999999998 699


Q ss_pred             EEecCCCC-CHHHHHHHHHHHHHHhhccc
Q psy2300         162 ETSAKDNV-NVKGVFERLVDIICDKMSES  189 (221)
Q Consensus       162 ~~Sa~~~~-gi~~l~~~i~~~~~~~~~~~  189 (221)
                      +|||++|+ |++++|..++..+.++...+
T Consensus       166 EtSAktg~~~V~e~F~~~~~~~~~~~~~~  194 (232)
T cd04174         166 ECSAFTSEKSIHSIFRSASLLCLNKLSPP  194 (232)
T ss_pred             EccCCcCCcCHHHHHHHHHHHHHHhcccc
Confidence            99999998 89999999999888765443

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=1e-34  Score=212.83  Aligned_cols=166  Identities=55%  Similarity=0.989  Sum_probs=151.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ++.+||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            35799999999999999999999999998888999998888888888888899999999999999888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|||++++.+|..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+.+++++||++|.|++++|+++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  160 (167)
T cd01867          81 LVYDITDEKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTL  160 (167)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999987765689999999999998776777788888888888999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      .+.+.+
T Consensus       161 ~~~~~~  166 (167)
T cd01867         161 AKDIKK  166 (167)
T ss_pred             HHHHHh
Confidence            998765

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. 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 inhi

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=1.1e-34  Score=216.89  Aligned_cols=184  Identities=32%  Similarity=0.538  Sum_probs=153.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.+|+|||||+++|+.+.+...+.++.+..+ ......++..+.+.+|||+|++.+..++..+++.+|++|+|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            589999999999999999999988777777776444 3445567777899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ++++.+|..+..|+..+....   ..+.|+++|+||+|+...+.+...+...++...+++++++||++|.|++++|++++
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144          80 ITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            999999999999998886653   25789999999999977777777778888888899999999999999999999999


Q ss_pred             HHHHHhhccccCCCCCCCCCCCCCccccCCCCCCCCCCCC
Q psy2300         180 DIICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPNC  219 (221)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c  219 (221)
                      +.+.++.....            .+..+++...+|++..|
T Consensus       160 ~~l~~~~~~~~------------~~~~~~~~~~~~~~~~~  187 (190)
T cd04144         160 RALRQQRQGGQ------------GPKGGPTKKKEKKKRKC  187 (190)
T ss_pred             HHHHHhhcccC------------CCcCCCCCcccccccCc
Confidence            98877665432            11344455566666666

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>KOG0088|consensus

Probab=100.00  E-value=9.8e-36  Score=205.43  Aligned_cols=169  Identities=38%  Similarity=0.738  Sum_probs=160.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ..+.|||+++|...+|||||+-+++.++|...+.+|..-++..+++.+.+....+.||||+|+++|..+-..|+++++++
T Consensus        10 ~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGa   89 (218)
T KOG0088|consen   10 KSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGA   89 (218)
T ss_pred             CceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCce
Confidence            35789999999999999999999999999999999988888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|||++|++||+.+.+|...+........-+++|+||+||++.+.++.++++.+++.-|..|+++||+.+.||.++|+.
T Consensus        90 lLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~  169 (218)
T KOG0088|consen   90 LLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFES  169 (218)
T ss_pred             EEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHH
Confidence            99999999999999999999998887778889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy2300         178 LVDIICDKM  186 (221)
Q Consensus       178 i~~~~~~~~  186 (221)
                      +...+.+..
T Consensus       170 Lt~~MiE~~  178 (218)
T KOG0088|consen  170 LTAKMIEHS  178 (218)
T ss_pred             HHHHHHHHh
Confidence            999888775

>KOG0091|consensus

Probab=100.00  E-value=3e-35  Score=203.96  Aligned_cols=203  Identities=37%  Similarity=0.690  Sum_probs=173.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe-CCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-HDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..|.++++|+|+.-+|||+|++.|..+++..-..||.|+++....+.+ ++..+.+++|||+|+++++++...|++++-+
T Consensus         5 f~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvg   84 (213)
T KOG0091|consen    5 FHYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVG   84 (213)
T ss_pred             eEEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccc
Confidence            468999999999999999999999999999999999999998777766 5567999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +++|||++++.||+++..|+..-..+..  ..+.+.+|+.|+||...++++.++++.+++.+++.++++|+++|.|+++.
T Consensus        85 vllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEA  164 (213)
T KOG0091|consen   85 VLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEA  164 (213)
T ss_pred             eEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHH
Confidence            9999999999999999999998766652  34558899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccccCCCCCCCCC---CCCCccccCCCCCCCCCCCCCC
Q psy2300         175 FERLVDIICDKMSESLDSDPNLVAG---PKGTRLTEQPQRNNPINPNCNC  221 (221)
Q Consensus       175 ~~~i~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~c~~  221 (221)
                      |.-|.+.+.....+-+-.-+.-=.+   ..+..++....+.++++++| |
T Consensus       165 F~mlaqeIf~~i~qGeik~edgw~gvKSsrpn~i~~s~~~~~P~k~c~-C  213 (213)
T KOG0091|consen  165 FDMLAQEIFQAIQQGEIKLEDGWGGVKSSRPNQIPRSPSRKQPSKPCQ-C  213 (213)
T ss_pred             HHHHHHHHHHHHhcCceeeeeccccccccCCCcCCCcccccCCCCCCC-C
Confidence            9999999988876532221111111   34444555566778888887 8

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=5.3e-34  Score=212.99  Aligned_cols=165  Identities=45%  Similarity=0.859  Sum_probs=150.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|.+|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+..++..++..+|++++||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            58999999999999999999999987778889888888888888888899999999999999989999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.+|..+..|+..+........|+++++||+|+.+...+..++...++...+++++++||++|.|++++|++|++.
T Consensus        81 d~~~~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~  160 (188)
T cd04125          81 DVTDQESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKL  160 (188)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999987765678999999999998777777788888888888999999999999999999999999


Q ss_pred             HHHhh
Q psy2300         182 ICDKM  186 (221)
Q Consensus       182 ~~~~~  186 (221)
                      +.++.
T Consensus       161 ~~~~~  165 (188)
T cd04125         161 IIKRL  165 (188)
T ss_pred             HHHHh
Confidence            87654

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. 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.

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=2.7e-34  Score=218.05  Aligned_cols=169  Identities=33%  Similarity=0.562  Sum_probs=145.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|+|||||+++|..+.|.. +.++.+..+.....    ..+.+.+||++|++.+..++..+++.+|++|+||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~   75 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTY   75 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEE
Confidence            589999999999999999999999864 56777765554433    4578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC-------------------CcccCHHHHHHHHHHhC-----
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED-------------------ERVISFERGKHLAESLG-----  157 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~-----  157 (221)
                      |++++++|.++..|+..+......+.|++||+||+|+.+                   .+.++.++...+++..+     
T Consensus        76 Dvt~~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~  155 (220)
T cd04126          76 DVSNVQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKML  155 (220)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccc
Confidence            999999999999888777665556799999999999965                   57788899999998876     


Q ss_pred             ---------CeEEEEecCCCCCHHHHHHHHHHHHHHhhccccCCCCC
Q psy2300         158 ---------VEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPN  195 (221)
Q Consensus       158 ---------~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~~~~~~  195 (221)
                               ++|++|||++|.||+++|..+++.+.+...+.....++
T Consensus       156 ~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~  202 (220)
T cd04126         156 DEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANR  202 (220)
T ss_pred             cccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence                     68999999999999999999999998877665554443

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. 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-bo

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=2.6e-34  Score=210.48  Aligned_cols=164  Identities=49%  Similarity=0.957  Sum_probs=150.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|++|+|||||++++.++.+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            58999999999999999999999998888888888888888888888888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ||++++++|..+..|+..+......+.|+++++||+|+.....+..++...++...+++++++||++|.|++++|++|++
T Consensus        82 ~d~~~~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~  161 (166)
T cd01869          82 YDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAR  161 (166)
T ss_pred             EECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHH
Confidence            99999999999999999998776568999999999999877778888888999988999999999999999999999998


Q ss_pred             HHHH
Q psy2300         181 IICD  184 (221)
Q Consensus       181 ~~~~  184 (221)
                      .+.+
T Consensus       162 ~~~~  165 (166)
T cd01869         162 EIKK  165 (166)
T ss_pred             HHHh
Confidence            7753

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. 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 t

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=2.1e-34  Score=212.19  Aligned_cols=159  Identities=32%  Similarity=0.678  Sum_probs=143.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+++|||||+.++..+.|..++.+|.+..+ ...+..++..+.+.+|||+|++.+..++..+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            7999999999999999999999999888999987665 445667888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCCc----------ccCHHHHHHHHHHhCC-eEEEEecCCCC
Q psy2300         102 DVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDER----------VISFERGKHLAESLGV-EFFETSAKDNV  169 (221)
Q Consensus       102 d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  169 (221)
                      |++++++|+++ ..|+..+.... .+.|++||+||+|+.+.+          .++.++...+++..+. .+++|||++|.
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~  159 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQ  159 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCccc
Confidence            99999999998 67999987665 579999999999996542          4778889999999997 69999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDII  182 (221)
Q Consensus       170 gi~~l~~~i~~~~  182 (221)
                      ||+++|+.+++.+
T Consensus       160 nV~~~F~~~~~~~  172 (176)
T cd04133         160 NVKAVFDAAIKVV  172 (176)
T ss_pred             CHHHHHHHHHHHH
Confidence            9999999999865

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=2e-34  Score=213.57  Aligned_cols=163  Identities=26%  Similarity=0.572  Sum_probs=146.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|+.++|||||+++|..+.|...+.||.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|++|
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            35789999999999999999999999998888899876553 56777888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|||++++.+|+++ ..|+..+.... ++.|++||+||+|+.+            .+.++.++.+.+++.+++ +|++||
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~S  160 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECS  160 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECC
Confidence            99999999999997 68999987765 6799999999999954            345888999999999996 899999


Q ss_pred             cCCCCC-HHHHHHHHHHHHH
Q psy2300         165 AKDNVN-VKGVFERLVDIIC  183 (221)
Q Consensus       165 a~~~~g-i~~l~~~i~~~~~  183 (221)
                      |++|.| |+++|..+++.+.
T Consensus       161 Ak~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         161 ALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             cCCCCCCHHHHHHHHHHHHh
Confidence            999998 9999999988654

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=4.7e-34  Score=208.95  Aligned_cols=163  Identities=90%  Similarity=1.375  Sum_probs=148.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            79999999999999999999999988888888888887777777777899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.+++.+..|+..+........|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+++.+.
T Consensus        82 d~~~~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  161 (165)
T cd01865          82 DITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDI  161 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999999999977665678999999999998777777778888888888999999999999999999999887


Q ss_pred             HHH
Q psy2300         182 ICD  184 (221)
Q Consensus       182 ~~~  184 (221)
                      +.+
T Consensus       162 ~~~  164 (165)
T cd01865         162 ICD  164 (165)
T ss_pred             HHh
Confidence            654

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. 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 promot

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=3.4e-34  Score=210.94  Aligned_cols=164  Identities=30%  Similarity=0.513  Sum_probs=146.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||++++..+.++..+.++.+..+ ...+.+++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            47999999999999999999999999888888887444 34566788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ||++++.+|+.+..|...+.... ..+.|+++|+||+|+.+.+.++.++...+++..++++++|||++|.|++++|++|+
T Consensus        81 ~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~  160 (172)
T cd04141          81 YSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLV  160 (172)
T ss_pred             EECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999988887654 35799999999999987777888889999998999999999999999999999999


Q ss_pred             HHHHHh
Q psy2300         180 DIICDK  185 (221)
Q Consensus       180 ~~~~~~  185 (221)
                      +.+.+.
T Consensus       161 ~~~~~~  166 (172)
T cd04141         161 REIRRK  166 (172)
T ss_pred             HHHHHh
Confidence            887764

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=3.6e-34  Score=212.39  Aligned_cols=167  Identities=49%  Similarity=0.943  Sum_probs=149.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC----------CeEEEEEEEeCCCcccccccch
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH----------DKRVKLQIWDTAGQERYRTITT   88 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~g~~~~~~~~~   88 (221)
                      ++.+||+++|++|||||||++++.++.+...+.++.+.++....+...          +..+.+.+||++|++.+..++.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            467999999999999999999999999988888988877776665543          3468899999999999999999


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      .+++++|++++|||++++++|.++..|+..+.... ..+.|+++|+||+|+.+.+.++.++...++...+++++++||++
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  161 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAAT  161 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCC
Confidence            99999999999999999999999999999987654 35789999999999987777788888999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2300         168 NVNVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~  185 (221)
                      |.|++++|++|.+.+.++
T Consensus       162 ~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         162 GTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999988764

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.4e-33  Score=214.06  Aligned_cols=168  Identities=42%  Similarity=0.785  Sum_probs=149.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe-CCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-HDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +.+||+|+|.+|+|||||+++|.+..+...+.++.+.++....+.. ++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL   80 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEE
Confidence            3589999999999999999999999988877888888887777766 455789999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|||++++++|+++..|+..+.... ....|++||+||+|+.+...+..++...+++.++++++++||++|.|++++|++
T Consensus        81 lv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~  160 (211)
T cd04111          81 LVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFEL  160 (211)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999987654 245788999999999877778888889999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy2300         178 LVDIICDKMS  187 (221)
Q Consensus       178 i~~~~~~~~~  187 (221)
                      |++.+.++..
T Consensus       161 l~~~~~~~~~  170 (211)
T cd04111         161 LTQEIYERIK  170 (211)
T ss_pred             HHHHHHHHhh
Confidence            9998887754

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. 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.

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=8.3e-34  Score=212.40  Aligned_cols=166  Identities=47%  Similarity=0.837  Sum_probs=147.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+|+|.+|+|||||+++|.++.+.. .+.++.+.++....+.+++..+.+.||||||++.+...+..+++.+|++|+|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            589999999999999999999998753 5677777777766777788889999999999999988888999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      +|++++.+++++..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++|.+|.+
T Consensus        81 ~D~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~  160 (191)
T cd04112          81 YDITNKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAK  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999999998876568999999999999766667777888888888899999999999999999999999


Q ss_pred             HHHHhhc
Q psy2300         181 IICDKMS  187 (221)
Q Consensus       181 ~~~~~~~  187 (221)
                      .+.+...
T Consensus       161 ~~~~~~~  167 (191)
T cd04112         161 ELKHRKY  167 (191)
T ss_pred             HHHHhcc
Confidence            9887753

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. 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.

>KOG0081|consensus

Probab=100.00  E-value=1.4e-36  Score=209.78  Aligned_cols=205  Identities=42%  Similarity=0.818  Sum_probs=178.2

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC---------CeEEEEEEEeCCCcccccc
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH---------DKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~g~~~~~~   85 (221)
                      ..++++.||.+.+|+.|+|||+++.++.++.|.+...+|.|+++..+.+..+         +..+.+++|||+|+++|++
T Consensus         3 ~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRS   82 (219)
T KOG0081|consen    3 DGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRS   82 (219)
T ss_pred             CccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHH
Confidence            4567899999999999999999999999999999999999999987776542         2348899999999999999


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEe
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETS  164 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  164 (221)
                      +...+++.|-+++++||+++..||-++++|+..+.-+. ..+.-+|+++||+|+++.+.++.+++..++.++++|||++|
T Consensus        83 LTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETS  162 (219)
T KOG0081|consen   83 LTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETS  162 (219)
T ss_pred             HHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeec
Confidence            99999999999999999999999999999999998777 45566999999999999999999999999999999999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhhccccCCC--CCCCCCCCCCccccCCCCCCCCCCCC
Q psy2300         165 AKDNVNVKGVFERLVDIICDKMSESLDSD--PNLVAGPKGTRLTEQPQRNNPINPNC  219 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~c  219 (221)
                      |-+|.|+++..+.+...+++++....++.  |........-|+..++..+++...+|
T Consensus       163 A~tg~Nv~kave~LldlvM~Rie~~v~~s~~p~~~~~~~~g~~~~e~~~~~~~c~nC  219 (219)
T KOG0081|consen  163 ACTGTNVEKAVELLLDLVMKRIEQCVEKSEIPLLVTRSNCGHLDGEEPCERKNCRNC  219 (219)
T ss_pred             cccCcCHHHHHHHHHHHHHHHHHHHHhhcccchhhhccccccCCCCCChhhhcccCC
Confidence            99999999999999999999887666554  33333334446777777777666666

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=2.3e-33  Score=212.75  Aligned_cols=169  Identities=39%  Similarity=0.781  Sum_probs=153.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      +++.+||+|+|++|+|||||+++|+...+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..++..+|++
T Consensus         3 ~~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~   82 (210)
T PLN03108          3 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGA   82 (210)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEE
Confidence            45779999999999999999999999988887888888888888888888888999999999999988899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|||++++.+++.+..|+..+........|+++|+||+|+.+.+.++.++.+.+++.++++++++||+++.|++++|++
T Consensus        83 vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~  162 (210)
T PLN03108         83 LLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIK  162 (210)
T ss_pred             EEEEECCcHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999998887665568999999999999887778888899999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy2300         178 LVDIICDKM  186 (221)
Q Consensus       178 i~~~~~~~~  186 (221)
                      +++.+.++.
T Consensus       163 l~~~~~~~~  171 (210)
T PLN03108        163 TAAKIYKKI  171 (210)
T ss_pred             HHHHHHHHh
Confidence            999887654

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=5.3e-34  Score=213.09  Aligned_cols=166  Identities=36%  Similarity=0.614  Sum_probs=146.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+|+|.+|+|||||++++..+.+...+.++.+.++ ...+.+++..+.+.+|||+|++.+..++..+++.+|++++
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            358999999999999999999999988777778777555 4566778888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||++++++|+.+..|+..+.... ..+.|+++|+||+|+.+...+..++...++..++++++++||++|.|++++|++|
T Consensus        83 v~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l  162 (189)
T PTZ00369         83 VYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYEL  162 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHH
Confidence            999999999999999998886653 3578999999999997766677777888888888999999999999999999999


Q ss_pred             HHHHHHhh
Q psy2300         179 VDIICDKM  186 (221)
Q Consensus       179 ~~~~~~~~  186 (221)
                      ++.+.+..
T Consensus       163 ~~~l~~~~  170 (189)
T PTZ00369        163 VREIRKYL  170 (189)
T ss_pred             HHHHHHHh
Confidence            99887654

>KOG0095|consensus

Probab=100.00  E-value=4.4e-35  Score=200.41  Aligned_cols=171  Identities=39%  Similarity=0.734  Sum_probs=161.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      +++++.+||+++|..|+|||.|+++|..+.|++....|+|.++.++++.++++.+.++||||.|+++|+++...|++.++
T Consensus         2 edykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcc
Confidence            46778999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++|+|||++...+|.-+..|+..+..+....+--|+|+||.|+.+.++++....++|+......++++||+...|++.+|
T Consensus        82 alilvydiscqpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf  161 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLF  161 (213)
T ss_pred             eEEEEEecccCcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHH
Confidence            99999999999999999999999999988888899999999999988999888999999988889999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy2300         176 ERLVDIICDKM  186 (221)
Q Consensus       176 ~~i~~~~~~~~  186 (221)
                      ..+.-.+...+
T Consensus       162 ~~~a~rli~~a  172 (213)
T KOG0095|consen  162 LDLACRLISEA  172 (213)
T ss_pred             HHHHHHHHHHH
Confidence            99887766554

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=6.1e-34  Score=207.52  Aligned_cols=160  Identities=48%  Similarity=0.877  Sum_probs=147.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||++++..+.+.+.+.++.+.++....+.+++..+.+.+||++|++.+..++..++..+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            58999999999999999999999998888899988888788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.+|+.+..|+..+......+.|+++|+||.|+.+.+.+..++...+++..+.+++++||++|.|++++|.+|.+.
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          81 DISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            99999999999999999877765679999999999998777788888999998888999999999999999999999864

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. 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

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=1.5e-33  Score=206.90  Aligned_cols=167  Identities=41%  Similarity=0.802  Sum_probs=151.6

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      +++.+||+|+|.+|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++
T Consensus         1 ~~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i   80 (168)
T cd01866           1 YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGA   80 (168)
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEE
Confidence            35679999999999999999999999998888788888888888888888888999999999999988888899999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|++++.++..+..|+..+.....++.|+++|+||.|+.+...++.++...++...++.++++||+++.|++++|.+
T Consensus        81 l~v~d~~~~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~  160 (168)
T cd01866          81 LLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFIN  160 (168)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998776678999999999999876677888888888888999999999999999999999


Q ss_pred             HHHHHHH
Q psy2300         178 LVDIICD  184 (221)
Q Consensus       178 i~~~~~~  184 (221)
                      +++.+.+
T Consensus       161 ~~~~~~~  167 (168)
T cd01866         161 TAKEIYE  167 (168)
T ss_pred             HHHHHHh
Confidence            9988754

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. 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 featur

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=7.8e-34  Score=209.89  Aligned_cols=161  Identities=26%  Similarity=0.552  Sum_probs=143.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|++|+|||||+++|..+.|+..+.++.+..+. ..+.+++..+.+.+|||+|++.+..++..+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            379999999999999999999999998888898876653 5677788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC-eEEEEecC
Q psy2300         101 YDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV-EFFETSAK  166 (221)
Q Consensus       101 ~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~  166 (221)
                      ||++++++|+++ ..|+..+.... ++.|+++|+||+|+.+            .+.++.++..++++.+++ .|++|||+
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~  158 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAF  158 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccC
Confidence            999999999996 78999987765 5899999999999954            245788999999999997 89999999


Q ss_pred             CCCC-HHHHHHHHHHHHH
Q psy2300         167 DNVN-VKGVFERLVDIIC  183 (221)
Q Consensus       167 ~~~g-i~~l~~~i~~~~~  183 (221)
                      +|+| ++++|..+++..+
T Consensus       159 ~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         159 TSEKSVRDIFHVATMACL  176 (178)
T ss_pred             cCCcCHHHHHHHHHHHHh
Confidence            9995 9999999998544

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=1.7e-33  Score=214.30  Aligned_cols=164  Identities=34%  Similarity=0.570  Sum_probs=148.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-eEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+++|.+|+|||||+++|....+...+.++.+.++....+.+++ ..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999999888899999888887777754 468999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCC---CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSW---DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ||++++++|+++..|+..+.....   .+.|+++|+||+|+.+.+.+..++...+++.++++++++||++|+|++++|++
T Consensus        81 ~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~  160 (215)
T cd04109          81 YDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQ  160 (215)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999877642   35689999999999877778888888999989999999999999999999999


Q ss_pred             HHHHHHHh
Q psy2300         178 LVDIICDK  185 (221)
Q Consensus       178 i~~~~~~~  185 (221)
                      |.+.+...
T Consensus       161 l~~~l~~~  168 (215)
T cd04109         161 LAAELLGV  168 (215)
T ss_pred             HHHHHHhc
Confidence            99988765

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. 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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=1.1e-33  Score=207.08  Aligned_cols=162  Identities=34%  Similarity=0.664  Sum_probs=147.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|+|||||+++|+++.+...+.++.+.++....+..++..+.+.+|||+|++.+..++..+++.+|++|+|+
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            58999999999999999999999998889999998888888888888899999999999999889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCC-----CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSW-----DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~-----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |++++.+++.+..|+..+.....     .+.|+++|+||+|+.+...++.++...++...+++++++||++|.|++++|+
T Consensus        81 D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  160 (168)
T cd04119          81 DVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQ  160 (168)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999877653     4689999999999975566677788888888889999999999999999999


Q ss_pred             HHHHHHH
Q psy2300         177 RLVDIIC  183 (221)
Q Consensus       177 ~i~~~~~  183 (221)
                      +|++.+.
T Consensus       161 ~l~~~l~  167 (168)
T cd04119         161 TLFSSIV  167 (168)
T ss_pred             HHHHHHh
Confidence            9998775

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. 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.

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=1.8e-33  Score=210.41  Aligned_cols=162  Identities=28%  Similarity=0.553  Sum_probs=141.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|..++|||||+.+|..+.|...+.+|.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            489999999999999999999999998888899876553 4456788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHhC-CeEEEEecC
Q psy2300         101 YDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAK  166 (221)
Q Consensus       101 ~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~~Sa~  166 (221)
                      ||++++.+|+++. .|+..+.... .+.|++||+||.|+.+..            .++.++.+.+++.++ ++++++||+
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk  160 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSAL  160 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCC
Confidence            9999999999997 5888776554 579999999999996542            356678888998888 589999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDIICD  184 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~  184 (221)
                      +|+|++++|+++++.+..
T Consensus       161 ~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         161 NQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCHHHHHHHHHHHHhc
Confidence            999999999999987754

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=2.2e-33  Score=205.34  Aligned_cols=163  Identities=42%  Similarity=0.796  Sum_probs=148.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+++|.+|||||||++++.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.++++++
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            56899999999999999999999999888888999888888888888888899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|++++.++..+..|+..+......+.|+++|+||.|+.+.+.+..++...++...+++++++||++|.|++++|++|+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  161 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLL  161 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            99999999999999999999887655799999999999987777777888888888889999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +.+
T Consensus       162 ~~i  164 (165)
T cd01868         162 TEI  164 (165)
T ss_pred             HHh
Confidence            764

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=3.7e-33  Score=211.97  Aligned_cols=169  Identities=25%  Similarity=0.529  Sum_probs=145.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|||||||+.+|..+.|+..+.||.+..+. ..+.+++..+.+.+|||+|++.|..++..+++.+|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            79999999999999999999999998889999876654 46677888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |++++++|+.+. .|...+.... ++.|++||+||+|+.+.            ..++.++...+++.+++ .|++|||++
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~  159 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRS  159 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCc
Confidence            999999999995 4777665543 68999999999999542            13677889999999995 899999999


Q ss_pred             CCC-HHHHHHHHHHHHHHhhccccCC
Q psy2300         168 NVN-VKGVFERLVDIICDKMSESLDS  192 (221)
Q Consensus       168 ~~g-i~~l~~~i~~~~~~~~~~~~~~  192 (221)
                      +.+ |+++|..++...+.+.......
T Consensus       160 ~~~~V~~~F~~~~~~~~~~~~~~~~~  185 (222)
T cd04173         160 SERSVRDVFHVATVASLGRGHRQLRR  185 (222)
T ss_pred             CCcCHHHHHHHHHHHHHhccCCcccc
Confidence            985 9999999999887765544333

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=3.3e-33  Score=204.42  Aligned_cols=163  Identities=46%  Similarity=0.814  Sum_probs=146.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ++.+||+|+|++|+|||||++++..+.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|+++
T Consensus         1 ~~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~l   80 (165)
T cd01864           1 DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAI   80 (165)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEE
Confidence            35799999999999999999999999888888888888888888888887789999999999999988999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...+++..+. .++++||++|.|++++|++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          81 IAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             EEEECcCHHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHH
Confidence            999999999999999999999776656899999999999987777777888888888875 7899999999999999999


Q ss_pred             HHHH
Q psy2300         178 LVDI  181 (221)
Q Consensus       178 i~~~  181 (221)
                      +.+.
T Consensus       161 l~~~  164 (165)
T cd01864         161 MATE  164 (165)
T ss_pred             HHHh
Confidence            9865

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. 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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=3.4e-33  Score=212.94  Aligned_cols=174  Identities=25%  Similarity=0.499  Sum_probs=149.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|.+|+|||||+++++.+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            56799999999999999999999999998889999998888888877777899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|||++++.+|..+..|+..+.... .+.|+++|+||+|+.+. .+..++. .+.+..++.|+++||++|.|++++|++|
T Consensus        91 lvfD~~~~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l  167 (219)
T PLN03071         91 IMFDVTARLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKNR-QVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYL  167 (219)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhhc-cCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHH
Confidence            9999999999999999999987664 67999999999999643 3344444 6677778899999999999999999999


Q ss_pred             HHHHHHhhccccCCCCC
Q psy2300         179 VDIICDKMSESLDSDPN  195 (221)
Q Consensus       179 ~~~~~~~~~~~~~~~~~  195 (221)
                      ++.+.+.........++
T Consensus       168 ~~~~~~~~~~~~~~~~~  184 (219)
T PLN03071        168 ARKLAGDPNLHFVESPA  184 (219)
T ss_pred             HHHHHcCcchhcccccc
Confidence            99887664433333333

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=2.7e-33  Score=204.17  Aligned_cols=161  Identities=41%  Similarity=0.775  Sum_probs=152.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+|+|++++|||||+++|.++.++..+.++.+.+.....+..++..+.+.+||++|++.+..++..++..+|++++|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999999999999899999999999999999999999999999888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++++++|+.+..|+..+........|++|++||.|+.+.+.++.++.+.+++.++.+|+++|++++.|+.++|..+++.+
T Consensus        81 ~~~~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i  160 (162)
T PF00071_consen   81 VTDEESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKI  160 (162)
T ss_dssp             TTBHHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            99999999999999999888866799999999999988788999999999999999999999999999999999999887


Q ss_pred             H
Q psy2300         183 C  183 (221)
Q Consensus       183 ~  183 (221)
                      .
T Consensus       161 ~  161 (162)
T PF00071_consen  161 L  161 (162)
T ss_dssp             H
T ss_pred             h
Confidence            5

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=1.6e-32  Score=205.84  Aligned_cols=165  Identities=32%  Similarity=0.654  Sum_probs=144.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+|+|.+|+|||||+++|+.+.+.. .+.++.+.++....+.+++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            589999999999999999999998864 5778888888777888888889999999999999999898899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC----cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE----RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ||++++.+++.+..|+..+.... .+.|+++|+||+|+...    ..+..++...++...+++++++||++|.|++++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  159 (193)
T cd04118          81 YDLTDSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ  159 (193)
T ss_pred             EECCCHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999988999887653 47999999999998532    34555667788888889999999999999999999


Q ss_pred             HHHHHHHHhhc
Q psy2300         177 RLVDIICDKMS  187 (221)
Q Consensus       177 ~i~~~~~~~~~  187 (221)
                      +|.+.+.+...
T Consensus       160 ~i~~~~~~~~~  170 (193)
T cd04118         160 KVAEDFVSRAN  170 (193)
T ss_pred             HHHHHHHHhcc
Confidence            99999876653

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. 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 facilita

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=3.7e-33  Score=207.05  Aligned_cols=162  Identities=24%  Similarity=0.532  Sum_probs=141.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|..|+|||||+++|..+.|...+.+|.+.++....+..++..+.+.+||++|++.+..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            58999999999999999999999998889999998888788888888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC-----CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED-----ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |++++.+|.++..|+..+........| ++|+||+|+..     ......++.+.+++..+++++++||++|.|++++|+
T Consensus        81 D~t~~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~  159 (182)
T cd04128          81 DLTRKSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFK  159 (182)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999998776544566 67899999842     111123556778888889999999999999999999


Q ss_pred             HHHHHHHH
Q psy2300         177 RLVDIICD  184 (221)
Q Consensus       177 ~i~~~~~~  184 (221)
                      ++.+.+.+
T Consensus       160 ~l~~~l~~  167 (182)
T cd04128         160 IVLAKAFD  167 (182)
T ss_pred             HHHHHHHh
Confidence            99988864

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. 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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=7e-33  Score=204.50  Aligned_cols=159  Identities=30%  Similarity=0.552  Sum_probs=139.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||+++|..+.|...+.|+.+..+. ..+..++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         1 ~~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            379999999999999999999999998888898876554 3456677889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhC-CeEEEEecC
Q psy2300         101 YDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLG-VEFFETSAK  166 (221)
Q Consensus       101 ~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~  166 (221)
                      ||++++++|+.+.. |+..+.... ++.|++||+||+|+.+.            +.+..++.+.+++..+ +.|+++||+
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~  158 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL  158 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCC
Confidence            99999999999974 988887654 57999999999998543            4567778888888887 689999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDI  181 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~  181 (221)
                      +|.|++++|+.++..
T Consensus       159 tg~~v~~~f~~~~~~  173 (175)
T cd01874         159 TQKGLKNVFDEAILA  173 (175)
T ss_pred             CCCCHHHHHHHHHHH
Confidence            999999999998874

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=5.6e-33  Score=202.60  Aligned_cols=160  Identities=38%  Similarity=0.665  Sum_probs=140.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|||||||++++..+.+...+.++.+ ......+..++..+.+.+|||+|++.+..++..+++.+|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999988777777765 334456667788889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...+++.++.+++++||++|.|++++|++|++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd04136          81 SITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVR  160 (163)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHH
Confidence            9999999999999988886653 357999999999999776667777777888888889999999999999999999987


Q ss_pred             HH
Q psy2300         181 II  182 (221)
Q Consensus       181 ~~  182 (221)
                      .+
T Consensus       161 ~~  162 (163)
T cd04136         161 QI  162 (163)
T ss_pred             hc
Confidence            54

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=6.6e-33  Score=202.59  Aligned_cols=162  Identities=36%  Similarity=0.644  Sum_probs=142.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|||||||+++++.+.+...+.++.+..+ ...+..++..+.+.+|||+|++.+..++..+++.+|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            37999999999999999999999888777777776554 35566777788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+...+..++...+++..+++++++||++|.|++++|.+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  159 (164)
T cd04175          80 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLV  159 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999988886543 46799999999999987777777777888888889999999999999999999998


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      +.+.
T Consensus       160 ~~l~  163 (164)
T cd04175         160 RQIN  163 (164)
T ss_pred             HHhh
Confidence            7654

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=9.4e-33  Score=206.03  Aligned_cols=164  Identities=27%  Similarity=0.546  Sum_probs=140.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+|+|.+|+|||||+++|.++.+...+.++.+..+.. .+... +..+.+.+|||+|++.+..++..++..+|++++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999999888888887766543 34444 6678999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC----cccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHH
Q psy2300         101 YDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE----RVISFERGKHLAESLGV-EFFETSAKDNVNVKGV  174 (221)
Q Consensus       101 ~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l  174 (221)
                      ||++++.+|+++.. |+..+.... .+.|+++|+||+|+...    +.+..++...++..+++ +++++||++|.|++++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~  158 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEV  158 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHH
Confidence            99999999999964 887776543 57999999999998543    34667788888988888 9999999999999999


Q ss_pred             HHHHHHHHHHhhc
Q psy2300         175 FERLVDIICDKMS  187 (221)
Q Consensus       175 ~~~i~~~~~~~~~  187 (221)
                      |+.+++.+.....
T Consensus       159 f~~l~~~~~~~~~  171 (187)
T cd04132         159 FDTAIEEALKKEG  171 (187)
T ss_pred             HHHHHHHHHhhhh
Confidence            9999998886653

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>KOG0097|consensus

Probab=100.00  E-value=4.7e-33  Score=188.97  Aligned_cols=205  Identities=32%  Similarity=0.655  Sum_probs=177.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+.+.+|-+++|+-|+|||.|+..|...+|-..-..++++++....+.+.+..+.+++|||.|+++|+...+.+++++.+
T Consensus         7 nysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaag   86 (215)
T KOG0097|consen    7 NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAG   86 (215)
T ss_pred             chhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccc
Confidence            45679999999999999999999999999988888899999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      .+.|||++.+..+.++..|+..-.....++..+++++||.|++..+.+..++++.|++..++.++++|+++|.++++.|-
T Consensus        87 almvyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafl  166 (215)
T KOG0097|consen   87 ALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFL  166 (215)
T ss_pred             eeEEEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHH
Confidence            99999999999999999999998888888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccccCCCCCCCCCCCCCccccC----CCCCCCCCCCCCC
Q psy2300         177 RLVDIICDKMSESLDSDPNLVAGPKGTRLTEQ----PQRNNPINPNCNC  221 (221)
Q Consensus       177 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~c~~  221 (221)
                      ...+.+.+....-...-+....+.......++    .+....++..|+|
T Consensus       167 e~akkiyqniqdgsldlnaaesgvq~k~~~p~~~~l~se~~~~kd~c~c  215 (215)
T KOG0097|consen  167 ETAKKIYQNIQDGSLDLNAAESGVQHKPSQPSRTSLSSEATGAKDQCSC  215 (215)
T ss_pred             HHHHHHHHhhhcCcccccchhccCcCCCCCCCccccccCCCCccccCCC
Confidence            98888888765444333333333333322222    2334555777988

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=8.9e-33  Score=201.28  Aligned_cols=160  Identities=43%  Similarity=0.756  Sum_probs=147.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|+|||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++++|+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988888888888888888888888889999999999999998999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.++..+..|+..+.....++.|+++++||.|+.....+..++...++...++.++++||+++.|++++|+++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          81 DITNRTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999999998877766789999999999997777778888888999899999999999999999999999875

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. 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 p

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.3e-32  Score=200.76  Aligned_cols=163  Identities=52%  Similarity=0.905  Sum_probs=148.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..++..+|++++||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            58999999999999999999999988888888888888888888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.+++.+..|+..+..+...+.|+++++||+|+.....+..+....+++..+++++++|+++|.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~  160 (164)
T smart00175       81 DITNRESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELARE  160 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999888766689999999999997766677788888888889999999999999999999999988


Q ss_pred             HHH
Q psy2300         182 ICD  184 (221)
Q Consensus       182 ~~~  184 (221)
                      +.+
T Consensus       161 ~~~  163 (164)
T smart00175      161 ILK  163 (164)
T ss_pred             Hhh
Confidence            754

Rab GTPases are implicated in vesicle trafficking.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.4e-32  Score=200.10  Aligned_cols=160  Identities=28%  Similarity=0.593  Sum_probs=140.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|||||||+++++.+.+...+.++.+.++....+..++..+.+.+|||+|++.+..++..++..+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            58999999999999999999998888888899888887777777778899999999999999988999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |+++++++..+..|+..+.... .+.|+++|+||+|+.+. ... .+...+++..++.++++||++|.|++++|++|++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~-~~~piiiv~nK~Dl~~~-~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877          81 DVTSRVTYKNVPNWHRDLVRVC-GNIPIVLCGNKVDIKDR-KVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhcccc-cCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            9999999999999999997765 38999999999999743 233 33455666677899999999999999999999988


Q ss_pred             HHH
Q psy2300         182 ICD  184 (221)
Q Consensus       182 ~~~  184 (221)
                      +.+
T Consensus       158 ~~~  160 (166)
T cd00877         158 LLG  160 (166)
T ss_pred             HHh
Confidence            865

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=6e-32  Score=205.37  Aligned_cols=171  Identities=46%  Similarity=0.757  Sum_probs=148.3

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ..+....+||+|+|.+|+|||||+++|.+..+ ..+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   86 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSFISSSV-EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNA   86 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCC-CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcC
Confidence            34556789999999999999999999999876 45678888888888888888888999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHH-HHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          95 MGFILMYDVTNEESFTSIQD-WITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      |++|+|||++++++|..+.. |...+.... ..+.|+++|+||+|+.....+..++...++...++.|+++||++|.|++
T Consensus        87 d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~  166 (211)
T PLN03118         87 QGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVE  166 (211)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999976 666665433 3468999999999998777777778888888888999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+.+..
T Consensus       167 ~l~~~l~~~~~~~~  180 (211)
T PLN03118        167 QCFEELALKIMEVP  180 (211)
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999987653

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=1.5e-32  Score=200.18  Aligned_cols=159  Identities=40%  Similarity=0.731  Sum_probs=142.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC--CeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH--DKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +||+++|.+|+|||||+++++++.+...+.++.+.++....+...  +..+.+.+||+||++.+..++..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            589999999999999999999999888888888888776666666  667899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|+++++++..+..|+..+.... .+.|+++|+||+|+.....++.++...+++..+++++++|+++|.|++++|++|.
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999999886544 5899999999999977777777888888998999999999999999999999987


Q ss_pred             HH
Q psy2300         180 DI  181 (221)
Q Consensus       180 ~~  181 (221)
                      ..
T Consensus       160 ~~  161 (162)
T cd04106         160 EK  161 (162)
T ss_pred             Hh
Confidence            54

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=3e-32  Score=200.21  Aligned_cols=162  Identities=30%  Similarity=0.586  Sum_probs=142.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.+|||||||++++..+.|...+.++.+.++....+..++..+.+.+||++|++.+..++..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999999988999999988888888888888999999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcc--cCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERV--ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +++++++..+..|+..+.... ....|+++|+||+|+.....  ...++...+++.++.+++++||++|.|++++|+.|+
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~  161 (170)
T cd04108          82 LTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVA  161 (170)
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            999999999999999875543 34578999999999965433  234556677777888999999999999999999998


Q ss_pred             HHHHH
Q psy2300         180 DIICD  184 (221)
Q Consensus       180 ~~~~~  184 (221)
                      +.+.+
T Consensus       162 ~~~~~  166 (170)
T cd04108         162 ALTFE  166 (170)
T ss_pred             HHHHH
Confidence            87753

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. 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 re

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=3.1e-32  Score=203.49  Aligned_cols=161  Identities=27%  Similarity=0.554  Sum_probs=137.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      .||+|+|++|+|||||+++|..+.+...+.++.+..+. ..+..++..+.+.+||++|++.+..++..++..+|++++||
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~   79 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCF   79 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEE
Confidence            38999999999999999999999998888888776543 44556777889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHhC-CeEEEEecCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~~Sa~~  167 (221)
                      |++++.+|+.+. .|+..+.... .+.|+++|+||+|+.+..            .+..++...++...+ +.|++|||++
T Consensus        80 dv~~~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  158 (189)
T cd04134          80 SVDSPDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKL  158 (189)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCc
Confidence            999999999986 4888887654 589999999999996543            245566777777776 6899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDIICD  184 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~  184 (221)
                      |.|++++|++|.+.+..
T Consensus       159 ~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         159 NRGVNEAFTEAARVALN  175 (189)
T ss_pred             CCCHHHHHHHHHHHHhc
Confidence            99999999999988863

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=3.8e-32  Score=198.06  Aligned_cols=160  Identities=27%  Similarity=0.550  Sum_probs=139.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|||||||++++..+.+.+.+.++.+.+........++..+.+.+|||+|++.+..++..+++.+|++++|+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            58999999999999999999999988777777777777777777888899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.++.++..|+..+.... .+.|+++|+||+|+...  . ..+...++...+++++++||++|.|++++|+.+++.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (161)
T cd04124          81 DVTRKITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS--V-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKL  156 (161)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh--H-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHH
Confidence            9999999999999999986643 57899999999998432  1 234456666678899999999999999999999998


Q ss_pred             HHHh
Q psy2300         182 ICDK  185 (221)
Q Consensus       182 ~~~~  185 (221)
                      +.++
T Consensus       157 ~~~~  160 (161)
T cd04124         157 AVSY  160 (161)
T ss_pred             HHhc
Confidence            8765

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. 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-b

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=4.6e-32  Score=199.26  Aligned_cols=162  Identities=35%  Similarity=0.656  Sum_probs=144.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +..+||+++|.+|+|||||+++|.++.+...+.++.+.++....+..++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i   82 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCL   82 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEE
Confidence            46799999999999999999999999988888888888877778888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKG  173 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~  173 (221)
                      +|||++++++++.+..|+..+....    ..+.|+++|+||+|+. .+.+..++.+++++.++. +++++||++|.|+.+
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  161 (170)
T cd04116          83 LTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAA  161 (170)
T ss_pred             EEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHH
Confidence            9999999999999999998876543    2468999999999996 445677888888888874 899999999999999


Q ss_pred             HHHHHHHH
Q psy2300         174 VFERLVDI  181 (221)
Q Consensus       174 l~~~i~~~  181 (221)
                      +|+++++.
T Consensus       162 ~~~~~~~~  169 (170)
T cd04116         162 AFEEAVRR  169 (170)
T ss_pred             HHHHHHhh
Confidence            99998864

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. 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, CX

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=3.3e-32  Score=199.16  Aligned_cols=159  Identities=28%  Similarity=0.526  Sum_probs=137.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|+|||||+++++++.+...+.++.+.++ ...+..+...+.+.+||++|++.+..++..++..+|++++||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            7999999999999999999999998777777776444 344555667789999999999999988888999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |++++++++.+..|+..+....   ..+.|+++|+||+|+...+.+..++...++...++.++++||++|.|++++|++|
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l  160 (165)
T cd04140          81 SVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQEL  160 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHH
Confidence            9999999999999988776543   2578999999999997766777777778888888899999999999999999998


Q ss_pred             HHH
Q psy2300         179 VDI  181 (221)
Q Consensus       179 ~~~  181 (221)
                      ++.
T Consensus       161 ~~~  163 (165)
T cd04140         161 LNL  163 (165)
T ss_pred             Hhc
Confidence            753

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=4.5e-32  Score=203.40  Aligned_cols=167  Identities=25%  Similarity=0.513  Sum_probs=144.4

Q ss_pred             EcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCCh
Q psy2300          27 IGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE  106 (221)
Q Consensus        27 vG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~  106 (221)
                      +|.+|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.||||+|++.+..++..+++.+|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999988888889999899888888888889999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         107 ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       107 ~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      .+|..+..|+..+.... .+.|+++|+||+|+... .+..+. ..++...++.|++|||++|.||.++|.+|++.+.+..
T Consensus        81 ~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~~-~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~  157 (200)
T smart00176       81 VTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKDR-KVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP  157 (200)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccc-cCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhcc
Confidence            99999999999997764 58999999999998543 344443 4677778899999999999999999999999887764


Q ss_pred             ccccCCCCCC
Q psy2300         187 SESLDSDPNL  196 (221)
Q Consensus       187 ~~~~~~~~~~  196 (221)
                      ...+...+..
T Consensus       158 ~~~~~~~~~~  167 (200)
T smart00176      158 NLEFVAMPAL  167 (200)
T ss_pred             cceeccCccc
Confidence            4334444444

Ran is involved in the active transport of proteins through nuclear pores.

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=3.7e-32  Score=198.41  Aligned_cols=161  Identities=32%  Similarity=0.599  Sum_probs=140.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||++++..+.+...+.++.+ ......+.+++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            37999999999999999999999998777777664 44556677788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ||++++.++.++..|+..+.... ..+.|+++|+||+|+.....+...+...++...+++++++||++|.|++++|.++.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04176          80 YSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIV  159 (163)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999988886653 35899999999999976666666677788877888999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +.+
T Consensus       160 ~~l  162 (163)
T cd04176         160 RQM  162 (163)
T ss_pred             Hhc
Confidence            654

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=3.8e-32  Score=200.39  Aligned_cols=158  Identities=29%  Similarity=0.598  Sum_probs=137.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|||||||+.+++.+.|..++.++.+.. ....+..++..+.+.+|||+|++.+..++..++.++|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDN-YSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceee-eEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            799999999999999999999999988888887643 3445567788899999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |++++++|..+. .|+..+.... ++.|++||+||+|+.+.            +.++.++...+++.++. .+++|||++
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  159 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALT  159 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccc
Confidence            999999999996 5888776654 57999999999999543            24778888899998884 999999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDI  181 (221)
Q Consensus       168 ~~gi~~l~~~i~~~  181 (221)
                      |.|++++|+.+++.
T Consensus       160 ~~~i~~~f~~l~~~  173 (174)
T cd01871         160 QKGLKTVFDEAIRA  173 (174)
T ss_pred             cCCHHHHHHHHHHh
Confidence            99999999998763

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=8.1e-32  Score=196.52  Aligned_cols=162  Identities=43%  Similarity=0.753  Sum_probs=147.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++.+|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            37999999999999999999999998777788888888888888888889999999999999988888899999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      +|+++++++..+..|+..+......+.|+++++||+|+........++...++...++.++++||++|.|+.++|++|++
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd01860          81 YDITSEESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAK  160 (163)
T ss_pred             EECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999987776568999999999999766667777888888888899999999999999999999988


Q ss_pred             HH
Q psy2300         181 II  182 (221)
Q Consensus       181 ~~  182 (221)
                      .+
T Consensus       161 ~l  162 (163)
T cd01860         161 KL  162 (163)
T ss_pred             Hh
Confidence            75

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. 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 mo

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=6e-32  Score=196.82  Aligned_cols=160  Identities=41%  Similarity=0.747  Sum_probs=145.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||++++.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|++++|+
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            48999999999999999999999988888888888888888888887789999999999999988999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++++|+.+..|+..+......+.|+++++||+|+.+......++...+++..++.++++|++++.|++++|++|.+.
T Consensus        81 d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          81 DITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             ECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            99999999999999998876654469999999999997666777788888888888999999999999999999999875

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. 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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=5.7e-32  Score=197.56  Aligned_cols=161  Identities=38%  Similarity=0.635  Sum_probs=139.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|+|||||++++.+..+...+.++.+. ........++..+.+.+|||||++.+..++..++..+|++++|+
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIED-SYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchhh-hEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            58999999999999999999999887766666653 33455666777889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |++++++++.+..|...+.... ..+.|+++|+||+|+...+.+..++...+++..+.+++++||++|.|++++|++|++
T Consensus        80 d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~  159 (164)
T smart00173       80 SITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHH
Confidence            9999999999999888876543 347899999999999776667777888888888899999999999999999999988


Q ss_pred             HHH
Q psy2300         181 IIC  183 (221)
Q Consensus       181 ~~~  183 (221)
                      .+.
T Consensus       160 ~~~  162 (164)
T smart00173      160 EIR  162 (164)
T ss_pred             HHh
Confidence            765

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=8e-32  Score=196.07  Aligned_cols=160  Identities=34%  Similarity=0.602  Sum_probs=138.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            37999999999999999999999988777777776443 45566777778899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +|++++.++..+..|+..+.... ..+.|+++|+||+|+.+ +.....+...++...+++++++||++|.|++++|++++
T Consensus        80 ~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          80 FAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHH
Confidence            99999999999998888887654 35789999999999966 34556777788888889999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04138         159 REI  161 (162)
T ss_pred             HHh
Confidence            654

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=9e-32  Score=197.81  Aligned_cols=162  Identities=39%  Similarity=0.739  Sum_probs=145.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-ccchhhccCCcEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-TITTAYYRGAMGFIL   99 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~vi~   99 (221)
                      .+||+++|++|+|||||+++++...+...+.++.+.++....+..++..+.+.+||++|++.+. .++..+++.+|++++
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~   81 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVF   81 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEE
Confidence            5899999999999999999999999888888888888888888888888999999999998876 578888999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC---CCCHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD---NVNVKGVF  175 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~~l~  175 (221)
                      |||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++   +.+++++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f  161 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIF  161 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHH
Confidence            999999999999999998887654 35799999999999988777888888888888889999999999   89999999


Q ss_pred             HHHHHHH
Q psy2300         176 ERLVDII  182 (221)
Q Consensus       176 ~~i~~~~  182 (221)
                      ..+.+.+
T Consensus       162 ~~l~~~~  168 (170)
T cd04115         162 MTLAHKL  168 (170)
T ss_pred             HHHHHHh
Confidence            9988765

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. 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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=1.2e-31  Score=195.74  Aligned_cols=161  Identities=35%  Similarity=0.610  Sum_probs=139.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||++++++..+...+.++.+..+ .....+++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccceE-EEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            48999999999999999999999887666666665333 44456777788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +|++++.+++.+..|+..+.... ..+.|+++++||+|+.....+..++...+++..+++++++||++|.|++++|++|+
T Consensus        81 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  160 (164)
T cd04145          81 FSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLV  160 (164)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999988886643 35789999999999987766777778888888889999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +.+
T Consensus       161 ~~~  163 (164)
T cd04145         161 RVI  163 (164)
T ss_pred             Hhh
Confidence            764

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=1.8e-31  Score=200.42  Aligned_cols=164  Identities=23%  Similarity=0.332  Sum_probs=135.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc--------cchhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT--------ITTAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~   93 (221)
                      +||+|+|.+|||||||+++|.++.+...+.|+.+.+.....+..++..+.+.+|||+|...+..        .....+..
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            5899999999999999999999998888888887666666667788888999999999654321        12234789


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-HhCCeEEEEecCCCC
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAE-SLGVEFFETSAKDNV  169 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  169 (221)
                      +|++|+|||++++++|+.+..|+..+....   ..+.|+++|+||+|+...+.+..++...++. ..+++|+++||++|.
T Consensus        81 ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~  160 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNW  160 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCC
Confidence            999999999999999999999988886653   3679999999999997766666666666654 457899999999999


Q ss_pred             CHHHHHHHHHHHHHHh
Q psy2300         170 NVKGVFERLVDIICDK  185 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~  185 (221)
                      |++++|+.+++.+..+
T Consensus       161 ~v~~lf~~i~~~~~~~  176 (198)
T cd04142         161 HILLLFKELLISATTR  176 (198)
T ss_pred             CHHHHHHHHHHHhhcc
Confidence            9999999999877644

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>cd04143 Rhes_like Rhes_like subfamily

Probab=100.00  E-value=2e-31  Score=206.05  Aligned_cols=160  Identities=26%  Similarity=0.424  Sum_probs=137.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|.+|+|||||+++|+.+.+...+.+|.+ ++....+.+++..+.+.||||+|++.+..++..++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            5899999999999999999999998877777775 455566677888899999999999988888888889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhh---------CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-hCCeEEEEecCCCCCH
Q psy2300         102 DVTNEESFTSIQDWITQIKTY---------SWDNAQVILVGNKCDMEDERVISFERGKHLAES-LGVEFFETSAKDNVNV  171 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~---------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi  171 (221)
                      |++++++|+++..|+..+...         ...+.|+++|+||+|+...+.+..++...++.. .++.++++||++|.|+
T Consensus        80 dv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI  159 (247)
T cd04143          80 SLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNL  159 (247)
T ss_pred             eCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCH
Confidence            999999999999998888653         224789999999999976566777777777654 3578999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         172 KGVFERLVDII  182 (221)
Q Consensus       172 ~~l~~~i~~~~  182 (221)
                      +++|++|.+..
T Consensus       160 ~elf~~L~~~~  170 (247)
T cd04143         160 DEMFRALFSLA  170 (247)
T ss_pred             HHHHHHHHHHh
Confidence            99999999865

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=2.8e-31  Score=193.95  Aligned_cols=160  Identities=34%  Similarity=0.606  Sum_probs=140.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD--SFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +||+++|++|||||||++++..+  .++..+.++.+.++....+..+ +..+.+.+||++|++.+..++..++..+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999865  6777888888888777766664 45689999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|+++++++..+..|+..+.... .+.|+++|+||+|+.+...+...+.+.+....+++++++||++|.|++++|+.|
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (164)
T cd04101          81 LVYDVSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESL  159 (164)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHH
Confidence            9999999999999999999887764 579999999999997766677666677777778899999999999999999999


Q ss_pred             HHHH
Q psy2300         179 VDII  182 (221)
Q Consensus       179 ~~~~  182 (221)
                      ++.+
T Consensus       160 ~~~~  163 (164)
T cd04101         160 ARAF  163 (164)
T ss_pred             HHHh
Confidence            8764

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=6.3e-31  Score=191.35  Aligned_cols=161  Identities=41%  Similarity=0.722  Sum_probs=142.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|+|||||+++|.+..+...+.++.+.+.....+...+..+.+.+||++|++.+..++..++..+|++++|+
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            58999999999999999999999887666666666666666766777789999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++++++.+..|+..+......+.|+++++||+|+.....+..++...+....+..++++|++++.|++++++++.+.
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~  160 (162)
T cd04123          81 DITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKR  160 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999999999887765679999999999998766677777778888888999999999999999999999876


Q ss_pred             H
Q psy2300         182 I  182 (221)
Q Consensus       182 ~  182 (221)
                      +
T Consensus       161 ~  161 (162)
T cd04123         161 M  161 (162)
T ss_pred             h
Confidence            4

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

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=8.1e-31  Score=192.80  Aligned_cols=165  Identities=40%  Similarity=0.720  Sum_probs=144.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|||||||++++.+..+...+.++.+.++....+...+..+.+.+||+||++.+..++..+++.+|++|+|+
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988877888888887777888888889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCCHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |++++.+++.+..|...+....    ..+.|+++|+||+|+........++...+++..+ .+++++|+++|.|++++|+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  160 (172)
T cd01862          81 DVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFE  160 (172)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHH
Confidence            9999999999888887765443    2378999999999997655666777778888877 6999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      ++.+.+.+..
T Consensus       161 ~i~~~~~~~~  170 (172)
T cd01862         161 TIARKALEQE  170 (172)
T ss_pred             HHHHHHHhcc
Confidence            9999888764

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. 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-

>cd01892 Miro2 Miro2 subfamily

Probab=100.00  E-value=3.7e-31  Score=194.27  Aligned_cols=163  Identities=18%  Similarity=0.251  Sum_probs=139.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .+.+||+++|.+|||||||+++|+++.+. ..+.+|.+..+....+..++..+.+.+||++|++.+..++..++..+|++
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~   81 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVA   81 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEE
Confidence            36899999999999999999999999988 78888888887777777788778899999999999988899999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~  176 (221)
                      ++|+|++++.+++.+..|+..+...  .+.|+++|+||+|+.+.......+...+++.+++ .++++||++|.|++++|+
T Consensus        82 llv~d~~~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~  159 (169)
T cd01892          82 CLVYDSSDPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFT  159 (169)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHH
Confidence            9999999999999998888766432  3799999999999965544333445667777776 479999999999999999


Q ss_pred             HHHHHHH
Q psy2300         177 RLVDIIC  183 (221)
Q Consensus       177 ~i~~~~~  183 (221)
                      .|.+.+.
T Consensus       160 ~l~~~~~  166 (169)
T cd01892         160 KLATAAQ  166 (169)
T ss_pred             HHHHHhh
Confidence            9998765

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=100.00  E-value=4.7e-31  Score=194.56  Aligned_cols=159  Identities=31%  Similarity=0.650  Sum_probs=137.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEEC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDV  103 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~  103 (221)
                      |+|+|++|+|||||+++|..+.+...+.++....+ ...+..++..+.+.+|||+|++.+..++..++..+|++|+|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            58999999999999999999998877777765444 34566677888999999999999999999999999999999999


Q ss_pred             CChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHhCC-eEEEEecCCCC
Q psy2300         104 TNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLGV-EFFETSAKDNV  169 (221)
Q Consensus       104 ~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  169 (221)
                      +++++|+.+.. |+..+.... ++.|+++|+||+|+....            .++.++...+++..+. .++++||++|.
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~  158 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQE  158 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCC
Confidence            99999999864 888887654 589999999999986532            3667778888988886 99999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDIICD  184 (221)
Q Consensus       170 gi~~l~~~i~~~~~~  184 (221)
                      |++++|+.+++.+++
T Consensus       159 ~v~~lf~~l~~~~~~  173 (174)
T smart00174      159 GVREVFEEAIRAALN  173 (174)
T ss_pred             CHHHHHHHHHHHhcC
Confidence            999999999987753

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=9e-31  Score=190.66  Aligned_cols=159  Identities=48%  Similarity=0.852  Sum_probs=141.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||+++|.+..+...+.++.+.++....+...+..+.+.+||+||++.+..++..+++.+|++++|+
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            68999999999999999999999887778888888888777777777889999999999999888889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |++++.+++.+..|+..+..+. ..+.|+++++||+|+... ....++...++...+++++++|+++|.|++++++++++
T Consensus        81 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~  159 (161)
T cd01863          81 DVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENR-EVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVE  159 (161)
T ss_pred             ECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCccccc-ccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHH
Confidence            9999999999999999887764 468999999999999743 44567788888888999999999999999999999887


Q ss_pred             H
Q psy2300         181 I  181 (221)
Q Consensus       181 ~  181 (221)
                      .
T Consensus       160 ~  160 (161)
T cd01863         160 K  160 (161)
T ss_pred             h
Confidence            5

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. 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 mos

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=6e-31  Score=196.90  Aligned_cols=158  Identities=26%  Similarity=0.471  Sum_probs=129.5

Q ss_pred             eeEEEEEcCCCCCHHHHHH-HHhcCC-----CCCccccceee-eeEEEE--------EEeCCeEEEEEEEeCCCcccccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLF-RYADDS-----FTSAFVSTVGI-DFKVKT--------VFRHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      .+||+++|..|+|||||+. ++.+..     +...+.||.+. +.+...        ..+++..+.+.+|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            3799999999999999995 665543     44566777752 322222        24677889999999999875  3


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCC-------------------CcccC
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED-------------------ERVIS  145 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~~  145 (221)
                      +...+++++|++|+|||++++.+|+++. .|+..+.... .+.|+++|+||+|+..                   .+.++
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~  158 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILP  158 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccC
Confidence            4556889999999999999999999997 4988887654 5789999999999864                   36788


Q ss_pred             HHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         146 FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .++.+.+++.++++|++|||++|.|++++|+.+++.
T Consensus       159 ~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         159 PETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            899999999999999999999999999999998764

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd04114 Rab30 Rab30 subfamily

Probab=99.98  E-value=2.5e-30  Score=189.75  Aligned_cols=164  Identities=42%  Similarity=0.764  Sum_probs=144.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|++|||||||++++..+.+...+.++.+.+.....+..++..+.+.+||++|++.+...+..++..+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999988887777788887777777888888889999999999999888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..+....+.+.....++++|+++|.|++++|++|
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i  164 (169)
T cd04114          85 LTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDL  164 (169)
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHH
Confidence            99999999999999999988877665679999999999997766666666677777667889999999999999999999


Q ss_pred             HHHH
Q psy2300         179 VDII  182 (221)
Q Consensus       179 ~~~~  182 (221)
                      .+.+
T Consensus       165 ~~~~  168 (169)
T cd04114         165 ACRL  168 (169)
T ss_pred             HHHh
Confidence            8754

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. 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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.98  E-value=2e-30  Score=190.25  Aligned_cols=161  Identities=34%  Similarity=0.598  Sum_probs=140.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|+|||||++++.++.+...+.++.+.. ....+..++..+.+.+||++|++.+..++..++..++++++|+
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~   80 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVY   80 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEE
Confidence            789999999999999999999998877777777644 3566667778889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCCHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |++++++++.+..|...+.... ..+.|+++++||.|+.+.+.+..++...+++..+ ++++++||++|.|++++|+++.
T Consensus        81 ~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177          81 SVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999999988886543 4579999999999998777777777777888877 7999999999999999999998


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      ..+.
T Consensus       161 ~~~~  164 (168)
T cd04177         161 RQII  164 (168)
T ss_pred             HHHh
Confidence            7553

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd04148 RGK RGK subfamily

Probab=99.98  E-value=2.1e-30  Score=197.90  Aligned_cols=164  Identities=25%  Similarity=0.391  Sum_probs=139.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc-CCcEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR-GAMGFIL   99 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-~~d~vi~   99 (221)
                      +||+++|++|+|||||+++|..+.+. ..+.++.+.++....+.+++..+.+.+||++|++.  .....++. .+|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEE
Confidence            58999999999999999999988876 55666665567777778888889999999999982  23444566 8999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l  158 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGI  158 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            999999999999999998887653 3579999999999998777777777788888888999999999999999999999


Q ss_pred             HHHHHHhhc
Q psy2300         179 VDIICDKMS  187 (221)
Q Consensus       179 ~~~~~~~~~  187 (221)
                      ++.+.....
T Consensus       159 ~~~~~~~~~  167 (221)
T cd04148         159 VRQIRLRRD  167 (221)
T ss_pred             HHHHHhhhc
Confidence            998875443

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd00154 Rab Rab family

Probab=99.98  E-value=2e-30  Score=187.69  Aligned_cols=158  Identities=53%  Similarity=0.907  Sum_probs=144.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++++|||||++++.+..+...+.++.+.++....+..+...+.+.+||+||+..+...+..+++++|++++|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999999988887888898888888888878889999999999998889999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |++++++++.+..|+..+......+.|+++++||+|+........++...++...+.+++++|++++.|+++++++|.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          81 DITNRESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999999999998887656799999999999975566677888888888889999999999999999999986

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 di

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.98  E-value=1.8e-30  Score=188.48  Aligned_cols=153  Identities=27%  Similarity=0.444  Sum_probs=128.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|+.|+|||||+.++..+.|...+.++ +..+ ...+.+++..+.+.+||++|++.     ..++..+|++++||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~   73 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVF   73 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEE
Confidence            58999999999999999999998887665544 3233 46677788888999999999974     24678899999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCC--CCcccCHHHHHHHHHHh-CCeEEEEecCCCCCHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDME--DERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |++++++|+++..|+..+.... ..+.|+++|+||.|+.  ..+.++.++...+++.. ++.|++|||++|.||+++|..
T Consensus        74 d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          74 SLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            9999999999999999987664 3578999999999984  35677778888888776 489999999999999999999


Q ss_pred             HHHH
Q psy2300         178 LVDI  181 (221)
Q Consensus       178 i~~~  181 (221)
                      +.+.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            8754

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.97  E-value=1.5e-30  Score=190.29  Aligned_cols=160  Identities=33%  Similarity=0.507  Sum_probs=135.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-ccccchhhccCCcEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-YRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d~vi~v~  101 (221)
                      ||+++|++|+|||||+++++...+...+.++....+ ...+..++..+.+.+||+||++. .......+++.+|++++|+
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            689999999999999999999887666666654333 45556677888999999999885 3445667889999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC-CCHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN-VNVKGVFERL  178 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-~gi~~l~~~i  178 (221)
                      |++++.+|+.+..|+..+....  ..+.|+++|+||+|+.+.+.++.++...+++..+.+|+++||++| .|++++|+.+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l  159 (165)
T cd04146          80 SITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHEL  159 (165)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHH
Confidence            9999999999999988887654  357999999999999776777778888888888999999999999 5999999999


Q ss_pred             HHHHH
Q psy2300         179 VDIIC  183 (221)
Q Consensus       179 ~~~~~  183 (221)
                      .+.+.
T Consensus       160 ~~~~~  164 (165)
T cd04146         160 CREVR  164 (165)
T ss_pred             HHHHh
Confidence            87654

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=3.9e-30  Score=189.59  Aligned_cols=157  Identities=34%  Similarity=0.597  Sum_probs=135.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||++++.++.+..++.++.. +.....+.+++..+.+.+||++|++.+..++..+++.+|++++||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAF-DNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            5899999999999999999999998887777753 444456777777889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |++++.+|+.+. .|+..+.... .+.|+++++||+|+..            .+.+..++...+++..+. .++++||++
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~  158 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALT  158 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCC
Confidence            999999999985 5888776532 4799999999999853            345677788889988887 899999999


Q ss_pred             CCCHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVD  180 (221)
Q Consensus       168 ~~gi~~l~~~i~~  180 (221)
                      |.|++++|+.++-
T Consensus       159 ~~~v~~lf~~~~~  171 (173)
T cd04130         159 QKNLKEVFDTAIL  171 (173)
T ss_pred             CCCHHHHHHHHHh
Confidence            9999999998763

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd04135 Tc10 TC10 subfamily

Probab=99.97  E-value=3.8e-30  Score=189.74  Aligned_cols=159  Identities=32%  Similarity=0.585  Sum_probs=135.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||+++|..+.+...+.++.... ....+..++..+.+.+||++|++.+..++..++..+|++++|+
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            589999999999999999999999877776766533 3345666777888999999999999999999999999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |++++.+|+.+. .|+..+... ..+.|+++|+||+|+.+.            ..++.++...+++..+. .+++|||++
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  158 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALT  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCc
Confidence            999999999986 488777655 478999999999998543            25667778888888886 799999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDII  182 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~  182 (221)
                      |.|++++|+.+++.+
T Consensus       159 ~~gi~~~f~~~~~~~  173 (174)
T cd04135         159 QKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCHHHHHHHHHHHh
Confidence            999999999998865

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>KOG0083|consensus

Probab=99.97  E-value=3.4e-32  Score=182.90  Aligned_cols=162  Identities=44%  Similarity=0.818  Sum_probs=150.8

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEEC
Q psy2300          25 LIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDV  103 (221)
Q Consensus        25 ~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~  103 (221)
                      .++|++++|||.|+-++.++.|. ....+|.|+++..+.+.+++..+.+++|||.|+++|++....|++.+|+++++||+
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydi   80 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDI   80 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeec
Confidence            37899999999999998887764 46788999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         104 TNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       104 ~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .+..||++.+.|+..+.++....+.+.+++||+|+...+.+..++.+.+++.+++|++++||++|.|++..|-.|.+.+.
T Consensus        81 ankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~  160 (192)
T KOG0083|consen   81 ANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELK  160 (192)
T ss_pred             ccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHH
Confidence            99999999999999999998778889999999999888888889999999999999999999999999999999999887


Q ss_pred             Hhh
Q psy2300         184 DKM  186 (221)
Q Consensus       184 ~~~  186 (221)
                      +..
T Consensus       161 k~~  163 (192)
T KOG0083|consen  161 KLK  163 (192)
T ss_pred             Hhc
Confidence            654

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.7e-29  Score=184.17  Aligned_cols=162  Identities=38%  Similarity=0.623  Sum_probs=139.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|+|||||+++++...+...+.++.+..+ ......++..+.+.+||++|++.+...+..+++.++++++|+
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhhE-EEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            5899999999999999999999988777666665433 344566778889999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |++++.++..+..|+..+.... ..+.|+++|+||+|+.........+...+....+++++++||++|.|++++|+++.+
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  159 (164)
T cd04139          80 SITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVR  159 (164)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHH
Confidence            9999999999999888887653 358999999999999764455666777788888899999999999999999999988


Q ss_pred             HHHH
Q psy2300         181 IICD  184 (221)
Q Consensus       181 ~~~~  184 (221)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04139         160 EIRQ  163 (164)
T ss_pred             HHHh
Confidence            7753

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd00876 Ras Ras family

Probab=99.97  E-value=4e-29  Score=181.46  Aligned_cols=158  Identities=39%  Similarity=0.662  Sum_probs=138.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|++|+|||||++++++..+...+.++.. +........++..+.+.+||+||++.+..++..++..+|++++|+|
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            689999999999999999998887677666665 4555566666667899999999999888888899999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .++++++.++..|...+..... ...|+++++||+|+........++...+....+.+++++|++++.|++++|++|++.
T Consensus        80 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876          80 ITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            9999999999998888876653 589999999999998766777788888888888899999999999999999999875

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=2.3e-29  Score=186.61  Aligned_cols=160  Identities=19%  Similarity=0.351  Sum_probs=125.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|.++||||||++++..+.+. .+.||.+.+..  .+.  ...+.+.+||++|++.+..+|..+++++|++|
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~--~~~--~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI   89 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLI   89 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCc-cccCCcceeEE--EEE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            34589999999999999999999987774 45677775543  332  24578999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-----CeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-----VEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++++++..+..++..+... ...+.|++|++||+|+++..  ..++.........     +.++++||++|+|+.
T Consensus        90 ~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~  167 (181)
T PLN00223         90 FVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRQRHWYIQSTCATSGEGLY  167 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCceEEEeccCCCCCCHH
Confidence            999999999998888777665332 23579999999999996643  3333333322111     246689999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      ++|+||.+.+.++
T Consensus       168 e~~~~l~~~~~~~  180 (181)
T PLN00223        168 EGLDWLSNNIANK  180 (181)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999887764

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=1.4e-29  Score=185.69  Aligned_cols=154  Identities=21%  Similarity=0.362  Sum_probs=122.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+++|.+|+|||||+++|..+.+. .+.++.+.++.  .+..  ..+.+.+||++|++.+..++..++..+|++++
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~   82 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   82 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCc-cccCCcccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3589999999999999999999987764 45677665554  2322  45789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-----hCCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAES-----LGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~gi~~  173 (221)
                      |+|++++.++.++..|+..+... ...+.|++||+||+|+.+.  +..++...+...     ..+.++++||++|.|+++
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~  160 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  160 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHH
Confidence            99999999999888877665432 2357899999999999643  345555555421     224789999999999999


Q ss_pred             HHHHHHH
Q psy2300         174 VFERLVD  180 (221)
Q Consensus       174 l~~~i~~  180 (221)
                      +|+||.+
T Consensus       161 ~~~~l~~  167 (168)
T cd04149         161 GLTWLSS  167 (168)
T ss_pred             HHHHHhc
Confidence            9999864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=9.1e-29  Score=182.52  Aligned_cols=159  Identities=31%  Similarity=0.597  Sum_probs=132.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      .||+|+|++|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.+|||+|++.+..++..++..+|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            58999999999999999999999988777777765443 35566778889999999999999888888899999999999


Q ss_pred             ECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         102 DVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       102 d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |++++++|+.+.. |+..+.... .+.|+++|+||+|+...            ..+...+.+.++...+. .+++|||++
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  159 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKT  159 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEecccc
Confidence            9999999998864 877776543 57999999999998542            22345566777777764 899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDII  182 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~  182 (221)
                      |.|++++|++|.+.+
T Consensus       160 ~~~v~~lf~~l~~~~  174 (175)
T cd01870         160 KEGVREVFEMATRAA  174 (175)
T ss_pred             CcCHHHHHHHHHHHh
Confidence            999999999998654

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=4.4e-29  Score=185.57  Aligned_cols=164  Identities=22%  Similarity=0.378  Sum_probs=130.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe-CCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-HDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      .+||+++|++|||||||++++..+.+... .++.+.+.....+.. ++..+.+.+|||+|++.+..++..++..+|++++
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~   81 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVF   81 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEE
Confidence            48999999999999999999998887543 577666665555544 3356889999999999998999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH------hCCeEEEEecCCCCCHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES------LGVEFFETSAKDNVNVK  172 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------~~~~~~~~Sa~~~~gi~  172 (221)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...++...+...      .+++++++||++|.|++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~  159 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQ  159 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHH
Confidence            999999999988888887765432 347999999999998643  333444433321      12468899999999999


Q ss_pred             HHHHHHHHHHHHhhc
Q psy2300         173 GVFERLVDIICDKMS  187 (221)
Q Consensus       173 ~l~~~i~~~~~~~~~  187 (221)
                      +++++|.+.+.+.+.
T Consensus       160 ~l~~~l~~~l~~~~~  174 (183)
T cd04152         160 EGLEKLYEMILKRRK  174 (183)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999998876653

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.97  E-value=6.4e-29  Score=186.93  Aligned_cols=160  Identities=29%  Similarity=0.427  Sum_probs=132.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.+|+|||||+++|+...+...+.++.. +.....+.+.+..+.+.+||++|+..+..++..++..+|++++|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            689999999999999999999988776666654 3444556667777899999999999998888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCC-CcccCHHHHHHHHH-HhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED-ERVISFERGKHLAE-SLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ++++.+++.+..|+..+..... .+.|+++|+||+|+.. ...+..+....... ..+.+++++||++|.|++++|++|+
T Consensus        80 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147          80 VDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999888876543 5799999999999965 34444444443333 3457899999999999999999999


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      +.+.
T Consensus       160 ~~~~  163 (198)
T cd04147         160 RQAN  163 (198)
T ss_pred             HHhh
Confidence            8765

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=2.1e-28  Score=181.49  Aligned_cols=164  Identities=35%  Similarity=0.575  Sum_probs=138.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      .||+|+|.+|+|||||++++....+...+.++....+ ...+..++..+.+.+||+||++.+..++..++..++++++|+
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            6899999999999999999999888766667665433 344556667788999999999999888889999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      |+++..+++.+..|+..+.... ..+.|+++++||+|+...+.+..++...++...+.+++++||+++.|+.++|+++.+
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  160 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIE  160 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999999877775543 357899999999999766666666667777777889999999999999999999999


Q ss_pred             HHHHhh
Q psy2300         181 IICDKM  186 (221)
Q Consensus       181 ~~~~~~  186 (221)
                      .+.+..
T Consensus       161 ~~~~~~  166 (180)
T cd04137         161 EIEKVE  166 (180)
T ss_pred             HHHHhc
Confidence            887554

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=1.8e-28  Score=182.90  Aligned_cols=164  Identities=31%  Similarity=0.538  Sum_probs=135.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      .||+|+|++|+|||||++++..+.+...+.++....+ ...+..++..+.+.+||++|++.+......++..+|++++||
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            5899999999999999999998887766666654333 335556777788999999999888877777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCC----------CcccCHHHHHHHHHHhCC-eEEEEecCCCC
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED----------ERVISFERGKHLAESLGV-EFFETSAKDNV  169 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  169 (221)
                      |+++.+++..+. .|+..+.... +..|+++|+||+|+.+          .+.+..++...+++..+. .+++|||++|.
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~  159 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGE  159 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCC
Confidence            999999999997 4888886654 5799999999999854          234556778888888885 89999999999


Q ss_pred             CHHHHHHHHHHHHHHhhc
Q psy2300         170 NVKGVFERLVDIICDKMS  187 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~~  187 (221)
                      |++++|+++.+.++..++
T Consensus       160 ~v~~~f~~l~~~~~~~~~  177 (187)
T cd04129         160 GVDDVFEAATRAALLVRK  177 (187)
T ss_pred             CHHHHHHHHHHHHhcccC
Confidence            999999999988766553

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=7.6e-30  Score=186.42  Aligned_cols=152  Identities=20%  Similarity=0.312  Sum_probs=124.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEEC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDV  103 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~  103 (221)
                      |+++|++|+|||||+++|.+..+...+.|+.+...  .  .++...+.+.+||++|++.+..++..+++.+|++++|+|+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~--~--~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS--V--AIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce--E--EEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            79999999999999999999988777788877543  2  2344568899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH----HHHHHHHHHhCCeEEEEecCC------CCCHHH
Q psy2300         104 TNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF----ERGKHLAESLGVEFFETSAKD------NVNVKG  173 (221)
Q Consensus       104 ~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~Sa~~------~~gi~~  173 (221)
                      +++.++.....|+..+.... .+.|+++|+||+|+...+.+..    .+...+++..++.++++||++      ++|+.+
T Consensus        78 t~~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~  156 (164)
T cd04162          78 ADSERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKD  156 (164)
T ss_pred             CCHHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHH
Confidence            99999999988888775443 6899999999999976543321    123445555678899998888      999999


Q ss_pred             HHHHHHH
Q psy2300         174 VFERLVD  180 (221)
Q Consensus       174 l~~~i~~  180 (221)
                      +|+.++.
T Consensus       157 ~~~~~~~  163 (164)
T cd04162         157 LLSQLIN  163 (164)
T ss_pred             HHHHHhc
Confidence            9998874

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=6.6e-29  Score=184.36  Aligned_cols=161  Identities=20%  Similarity=0.342  Sum_probs=125.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|++|+|||||++++..+.+.. +.+|.+..+.  .+..  ..+.+.+||++|++.+..++..+++.+|++|
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI   89 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVE--TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLI   89 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCccc-cCCccccceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            346899999999999999999998887754 5677765543  2322  4578999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++++++.....++..+... .....|++||+||.|+.+..  ..++......     ...+.++++||++|.|++
T Consensus        90 ~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~  167 (182)
T PTZ00133         90 FVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYIQGCCATTAQGLY  167 (182)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHH
Confidence            999999999999888766665322 23468999999999996532  2233222211     112357799999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+.+++
T Consensus       168 e~~~~l~~~i~~~~  181 (182)
T PTZ00133        168 EGLDWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999888775

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=5.9e-29  Score=182.64  Aligned_cols=156  Identities=21%  Similarity=0.382  Sum_probs=125.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.++||||||+++|.+..+. .+.+|.+..+.  .+..  ..+.+.+||+||++.+...+..++..+|++++|+|
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~~T~~~~~~--~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D   75 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPIPTIGFNVE--TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVD   75 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCceeEE--EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEe
Confidence            6899999999999999999998764 36677665443  2322  45789999999999998899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC------CeEEEEecCCCCCHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLG------VEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++.++.++..|+..+.... ..+.|++|++||+|+.+.  ++.++...++...+      +.++++||++|.|++++|
T Consensus        76 ~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f  153 (169)
T cd04158          76 SSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGA--LSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGL  153 (169)
T ss_pred             CCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccC--CCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHH
Confidence            999999999988888875432 346899999999999643  45555655553222      368899999999999999


Q ss_pred             HHHHHHHHHh
Q psy2300         176 ERLVDIICDK  185 (221)
Q Consensus       176 ~~i~~~~~~~  185 (221)
                      +||.+.+...
T Consensus       154 ~~l~~~~~~~  163 (169)
T cd04158         154 DWLSRQLVAA  163 (169)
T ss_pred             HHHHHHHhhc
Confidence            9998876554

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=3.2e-28  Score=185.45  Aligned_cols=168  Identities=27%  Similarity=0.546  Sum_probs=145.6

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      +.+....+||+++|++|||||||++++..+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..++..+
T Consensus         3 ~~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~   82 (215)
T PTZ00132          3 QMDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKG   82 (215)
T ss_pred             cccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccC
Confidence            34556779999999999999999999998888888999999888888887788889999999999999988888899999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +++++|+|+++..++..+..|+..+.... .+.|+++++||+|+.+.. ... +...++...++.++++|+++|.|++++
T Consensus        83 ~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~~~-~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~  159 (215)
T PTZ00132         83 QCAIIMFDVTSRITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKDRQ-VKA-RQITFHRKKNLQYYDISAKSNYNFEKP  159 (215)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcccc-CCH-HHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999999999998887654 578999999999986432 332 334566777889999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2300         175 FERLVDIICDK  185 (221)
Q Consensus       175 ~~~i~~~~~~~  185 (221)
                      |.+|++.+...
T Consensus       160 f~~ia~~l~~~  170 (215)
T PTZ00132        160 FLWLARRLTND  170 (215)
T ss_pred             HHHHHHHHhhc
Confidence            99999988764

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=1.2e-29  Score=184.42  Aligned_cols=152  Identities=19%  Similarity=0.371  Sum_probs=118.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.++||||||++++..+.+. .+.|+.+....  .+..  ..+.+.+||++|++.+..++..+++++|++++|+
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~   75 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVE--TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence            58999999999999999999888775 46777765543  2332  4578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      |++++.++..+..|+..+... ...+.|++|++||+|+.+..  ..++......     ...+.++++||++|.|++++|
T Consensus        76 D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          76 DSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             eCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            999999999988877665332 22468999999999996532  2222222211     123467899999999999999


Q ss_pred             HHHHH
Q psy2300         176 ERLVD  180 (221)
Q Consensus       176 ~~i~~  180 (221)
                      ++|.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99864

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=2.4e-29  Score=185.69  Aligned_cols=156  Identities=18%  Similarity=0.338  Sum_probs=121.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+++|.+|+|||||++++..+.+. .+.||.+..+..  ...  ..+.+.+||++|++.+..++..+++++|++|+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            3599999999999999999999877764 456777655543  322  45789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  173 (221)
                      |+|++++.+++....|+..+... ...+.|++||+||+|+.+..  +.++......     ...+.++++||++|.|+++
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  164 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYE  164 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHH
Confidence            99999999999988877776432 23578999999999996532  2233322221     1123577899999999999


Q ss_pred             HHHHHHHHH
Q psy2300         174 VFERLVDII  182 (221)
Q Consensus       174 l~~~i~~~~  182 (221)
                      +|+||.+.+
T Consensus       165 ~~~~l~~~~  173 (175)
T smart00177      165 GLTWLSNNL  173 (175)
T ss_pred             HHHHHHHHh
Confidence            999998764

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=2.9e-28  Score=179.01  Aligned_cols=157  Identities=36%  Similarity=0.652  Sum_probs=131.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|++|+|||||+++|.+..+...+.++.... .......++..+.+.+||+||++.+...+...++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVFDN-YSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            689999999999999999999999866666666533 3445566778889999999999988888888889999999999


Q ss_pred             ECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCc-----------ccCHHHHHHHHHHhCC-eEEEEecCCC
Q psy2300         102 DVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDER-----------VISFERGKHLAESLGV-EFFETSAKDN  168 (221)
Q Consensus       102 d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~  168 (221)
                      |++++.++..... |+..+.... .+.|+++|+||+|+....           .+..++...+....+. +++++||++|
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQ  158 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCC
Confidence            9999999887765 777776554 489999999999986543           3356677778888887 9999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVD  180 (221)
Q Consensus       169 ~gi~~l~~~i~~  180 (221)
                      .|+.++|++|++
T Consensus       159 ~gi~~l~~~i~~  170 (171)
T cd00157         159 EGVKEVFEEAIR  170 (171)
T ss_pred             CCHHHHHHHHhh
Confidence            999999999875

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>KOG4252|consensus

Probab=99.96  E-value=6.1e-31  Score=185.34  Aligned_cols=184  Identities=30%  Similarity=0.565  Sum_probs=169.8

Q ss_pred             hhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh
Q psy2300          11 KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY   90 (221)
Q Consensus        11 ~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   90 (221)
                      ..|.+.+++..||++++|..++||||+|+++|.+.|...+..++++++....+.+..+.+++.+||++|++++..+...|
T Consensus        10 ~am~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAy   89 (246)
T KOG4252|consen   10 MAMDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAY   89 (246)
T ss_pred             CCCCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHH
Confidence            45667778889999999999999999999999999999999999999998888888888899999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      +++|.+.++||+.+|+.||+....|.+.+.... ...|.++|-||+|+.++..+...+.+.+++..+..++.+|++...|
T Consensus        90 yrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~N  168 (246)
T KOG4252|consen   90 YRGAQASVLVFSTTDRYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFN  168 (246)
T ss_pred             hccccceEEEEecccHHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhh
Confidence            999999999999999999999999999986654 6899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhccccCCCCC
Q psy2300         171 VKGVFERLVDIICDKMSESLDSDPN  195 (221)
Q Consensus       171 i~~l~~~i~~~~~~~~~~~~~~~~~  195 (221)
                      +.++|.+|++.+.+++..+.+..++
T Consensus       169 V~~vF~YLaeK~~q~~kq~~~~~~~  193 (246)
T KOG4252|consen  169 VMHVFAYLAEKLTQQKKQSLNANER  193 (246)
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhchh
Confidence            9999999999999988776655533

>cd04154 Arl2 Arl2 subfamily

Probab=99.96  E-value=1.5e-28  Score=181.15  Aligned_cols=155  Identities=23%  Similarity=0.333  Sum_probs=122.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +..++|+++|++|+|||||+++|.+..+ ..+.++.+..  ...+..+  .+.+.+||+||++.+..++..++..+|+++
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDI-DTISPTLGFQ--IKTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-CCcCCccccc--eEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4568999999999999999999998754 4456666633  3334343  478999999999988888889999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++.....|+..+... ...+.|+++|+||+|+.+..  ..++...+..     ..+++++++||++|.|++
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  164 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLL  164 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHH
Confidence            999999999999888877776432 23589999999999996543  3445554443     234689999999999999


Q ss_pred             HHHHHHHH
Q psy2300         173 GVFERLVD  180 (221)
Q Consensus       173 ~l~~~i~~  180 (221)
                      ++|+++.+
T Consensus       165 ~l~~~l~~  172 (173)
T cd04154         165 QGIDWLVD  172 (173)
T ss_pred             HHHHHHhc
Confidence            99999864

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>KOG0395|consensus

Probab=99.96  E-value=4.4e-28  Score=180.56  Aligned_cols=166  Identities=37%  Similarity=0.563  Sum_probs=152.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+++|.+|+|||+|+.+|....|...+.||++ +.+.+.+.++++.+.+.|+||+|++.+..+...++..++++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            468999999999999999999999999999999998 6666777788889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      ||+++++.||+.+..++..+.+.. ....|+++|+||+|+...+.++.++...++..++++++++||+.+.+++++|..|
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L  160 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYEL  160 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHH
Confidence            999999999999999999984433 4567999999999999889999999999999999999999999999999999999


Q ss_pred             HHHHHHhh
Q psy2300         179 VDIICDKM  186 (221)
Q Consensus       179 ~~~~~~~~  186 (221)
                      .+.+....
T Consensus       161 ~r~~~~~~  168 (196)
T KOG0395|consen  161 VREIRLPR  168 (196)
T ss_pred             HHHHHhhh
Confidence            99887744

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=1e-27  Score=175.60  Aligned_cols=160  Identities=24%  Similarity=0.356  Sum_probs=123.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+++|.+|||||||+++|..+.++..+.++.. .+ .....+++..+.+.+|||+|.+.+...+..++..+|++++||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~   78 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLP-EI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVY   78 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCccc-ce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEE
Confidence            4899999999999999999999988655333221 11 233344567789999999999887777777889999999999


Q ss_pred             ECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHHHh-C-CeEEEEecCCCCCHHHHHH
Q psy2300         102 DVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAESL-G-VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       102 d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~-~-~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |++++.+++.+. .|+..+.... .+.|+++|+||+|+.+.....  .++...+.... + .+++++||++|.|++++|+
T Consensus        79 d~~~~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          79 SVDRPSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            999999999985 5888776654 489999999999996654321  12233333333 2 3799999999999999999


Q ss_pred             HHHHHHHH
Q psy2300         177 RLVDIICD  184 (221)
Q Consensus       177 ~i~~~~~~  184 (221)
                      .+.+.+.+
T Consensus       158 ~~~~~~~~  165 (166)
T cd01893         158 YAQKAVLH  165 (166)
T ss_pred             HHHHHhcC
Confidence            99887754

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>KOG0393|consensus

Probab=99.96  E-value=1.7e-28  Score=179.18  Aligned_cols=165  Identities=34%  Similarity=0.598  Sum_probs=149.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ..+|++|||+..+|||+|+..+..+.|+..+.||.. +-+...+.++ +..+.+.+|||+|++.|..++...++.+|+++
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl   81 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFL   81 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEE
Confidence            569999999999999999999999999999999998 6666667774 89999999999999999999988899999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +||++.++.||+++.. |+..+..++ ++.|+|+|++|.||.++            ..++.++...+++.+|. .|++||
T Consensus        82 ~cfsv~~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcS  160 (198)
T KOG0393|consen   82 LCFSVVSPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECS  160 (198)
T ss_pred             EEEEcCChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeeh
Confidence            9999999999999877 999998887 89999999999999632            36777888999999994 899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhh
Q psy2300         165 AKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |++..|+.++|+..+.......
T Consensus       161 a~tq~~v~~vF~~a~~~~l~~~  182 (198)
T KOG0393|consen  161 ALTQKGVKEVFDEAIRAALRPP  182 (198)
T ss_pred             hhhhCCcHHHHHHHHHHHhccc
Confidence            9999999999999888877654

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=3.4e-28  Score=177.12  Aligned_cols=152  Identities=18%  Similarity=0.339  Sum_probs=117.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +|+++|.+|||||||+++|.+..+ ...+.++.+.....  +.  ...+.+.+||+||++.+..++..++..+|++++|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES--FE--KGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE--EE--ECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999998753 45567777654432  22  24578999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  173 (221)
                      |++++.++.....|+..+....   ..+.|+++|+||+|+.+..  ..++......     ...+.++++||++|.|+++
T Consensus        77 D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~  154 (162)
T cd04157          77 DSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDE  154 (162)
T ss_pred             eCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHH
Confidence            9999999988888877764431   2579999999999996542  2222222211     1124589999999999999


Q ss_pred             HHHHHHH
Q psy2300         174 VFERLVD  180 (221)
Q Consensus       174 l~~~i~~  180 (221)
                      +|++|.+
T Consensus       155 ~~~~l~~  161 (162)
T cd04157         155 GVQWLQA  161 (162)
T ss_pred             HHHHHhc
Confidence            9999864

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.96  E-value=3.2e-28  Score=178.35  Aligned_cols=153  Identities=17%  Similarity=0.289  Sum_probs=120.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      +|+++|.+|||||||++++.+. +...+.++.+....  .+..  ..+.+.+||++|++.+..++..+++.+|++++|+|
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D   75 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTPT--KLRL--DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVD   75 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCC-CCccccCcccceEE--EEEE--CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEE
Confidence            4899999999999999999977 66677788775533  3333  44789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCH-HH---HHHHHHHhC--CeEEEEecCCC------C
Q psy2300         103 VTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISF-ER---GKHLAESLG--VEFFETSAKDN------V  169 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~-~~---~~~~~~~~~--~~~~~~Sa~~~------~  169 (221)
                      ++++.++..+..|+..+.... ..+.|+++|+||+|+++...... .+   ...+++..+  +.+++|||++|      .
T Consensus        76 ~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~  155 (167)
T cd04161          76 SSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDP  155 (167)
T ss_pred             CCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcccc
Confidence            999999999998888876542 35799999999999976542111 11   122222222  46788999998      8


Q ss_pred             CHHHHHHHHHH
Q psy2300         170 NVKGVFERLVD  180 (221)
Q Consensus       170 gi~~l~~~i~~  180 (221)
                      |+.+.|+||.+
T Consensus       156 g~~~~~~wl~~  166 (167)
T cd04161         156 SIVEGLRWLLA  166 (167)
T ss_pred             CHHHHHHHHhc
Confidence            99999999974

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=2.9e-27  Score=177.38  Aligned_cols=149  Identities=23%  Similarity=0.368  Sum_probs=126.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-----CeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-----DKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +||+++|..++|||||+++|..+.+...+.+|.+.++....+..+     +..+.+.+||++|++.+..++..+++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999999988888998877777666653     456899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC-------------------CCCCcEEEEEeCCCCCCCcccCHH----HHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS-------------------WDNAQVILVGNKCDMEDERVISFE----RGKHLA  153 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~-------------------~~~~p~ivv~nK~Dl~~~~~~~~~----~~~~~~  153 (221)
                      +|+|||++++.+|+++..|+..+....                   ..+.|++||+||.|+.+.+.++.+    ....++
T Consensus        81 iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia  160 (202)
T cd04102          81 IILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVA  160 (202)
T ss_pred             EEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHH
Confidence            999999999999999999999986531                   246899999999999665544443    244567


Q ss_pred             HHhCCeEEEEecCCCCC
Q psy2300         154 ESLGVEFFETSAKDNVN  170 (221)
Q Consensus       154 ~~~~~~~~~~Sa~~~~g  170 (221)
                      ...+++.++.+++++..
T Consensus       161 ~~~~~~~i~~~c~~~~~  177 (202)
T cd04102         161 EQGNAEEINLNCTNGRL  177 (202)
T ss_pred             HhcCCceEEEecCCccc
Confidence            77889999999887744

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.96  E-value=2.8e-27  Score=174.44  Aligned_cols=157  Identities=26%  Similarity=0.432  Sum_probs=125.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|+.|||||||++++..+.+ ....||.+...  ..+...  ++.+.+||++|+..++..|..++..+|++|
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~-~~~~pT~g~~~--~~i~~~--~~~~~~~d~gG~~~~~~~w~~y~~~~~~iI   86 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEI-SETIPTIGFNI--EEIKYK--GYSLTIWDLGGQESFRPLWKSYFQNADGII   86 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSE-EEEEEESSEEE--EEEEET--TEEEEEEEESSSGGGGGGGGGGHTTESEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccc-cccCccccccc--ceeeeC--cEEEEEEeccccccccccceeeccccceeE
Confidence            5789999999999999999999998764 33666666444  444443  367999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH------hCCeEEEEecCCCCCH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAES------LGVEFFETSAKDNVNV  171 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------~~~~~~~~Sa~~~~gi  171 (221)
                      ||+|.++.+.+.+....+..+.. ....+.|++|++||+|+++.  .+.++.......      ..+.++.|||.+|+|+
T Consensus        87 fVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv  164 (175)
T PF00025_consen   87 FVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGV  164 (175)
T ss_dssp             EEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTH
T ss_pred             EEEecccceeecccccchhhhcchhhcccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCH
Confidence            99999999988888886666543 23458999999999998664  344555444322      2356899999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         172 KGVFERLVDII  182 (221)
Q Consensus       172 ~~l~~~i~~~~  182 (221)
                      .+.++||.+.+
T Consensus       165 ~e~l~WL~~~~  175 (175)
T PF00025_consen  165 DEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99999999865

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=2.6e-27  Score=174.69  Aligned_cols=153  Identities=18%  Similarity=0.338  Sum_probs=119.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .++|+++|++|+|||||+++++.+.+.. +.++.+.++.  .+..  ..+.+.+||+||++.+...+..++..+|++++|
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVE--EIVY--KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCC-cCCccccceE--EEEE--CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            5899999999999999999999888754 5666665543  3333  347899999999999988899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +|+++++++.....++..+.... ..+.|+++++||+|+.+.  ...++.....     ...+++++++||++|.|++++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~  167 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEG  167 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHHH
Confidence            99999998888877666654332 347999999999999653  2333322221     123457999999999999999


Q ss_pred             HHHHHH
Q psy2300         175 FERLVD  180 (221)
Q Consensus       175 ~~~i~~  180 (221)
                      |++|.+
T Consensus       168 ~~~l~~  173 (174)
T cd04153         168 LDWIAS  173 (174)
T ss_pred             HHHHhc
Confidence            999864

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.95  E-value=2.2e-27  Score=172.56  Aligned_cols=152  Identities=22%  Similarity=0.398  Sum_probs=117.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      +|+++|++|||||||+++|.+..+.. ..++.+.++.  .+... ..+.+.+||++|++.+...+..++..+|++++|+|
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~--~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D   76 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVE--MLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVD   76 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-ccCccCcceE--EEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEE
Confidence            58999999999999999999988753 4566664443  33332 45789999999999988888889999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHH------HHhCCeEEEEecCCCCCHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLA------ESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~------~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++.++.....|+..+.... ..+.|+++|+||+|+...  ...++.....      ...++++++|||++|+|++++|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          77 SSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            999998988888777764432 258999999999998543  2223332221      1123578999999999999999


Q ss_pred             HHHHH
Q psy2300         176 ERLVD  180 (221)
Q Consensus       176 ~~i~~  180 (221)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            99864

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=4.6e-27  Score=175.75  Aligned_cols=156  Identities=21%  Similarity=0.339  Sum_probs=123.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|++|||||||++++.+..+. .+.++.+...  ..+..+  .+.+.+||+||++.+...+..+++.+|+++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~ii   91 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIG--NIKFKTFDLGGHEQARRLWKDYFPEVDGIV   91 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEE
Confidence            35799999999999999999999988763 4556655433  334343  367899999999988888888999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH----------------hCCeEE
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES----------------LGVEFF  161 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----------------~~~~~~  161 (221)
                      +|+|+++..++.....|+..+.... ..+.|+++++||+|+..  .+..++.+.++..                ....++
T Consensus        92 lV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (190)
T cd00879          92 FLVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVF  169 (190)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEE
Confidence            9999999998988877777765432 35799999999999854  3455566555532                124689


Q ss_pred             EEecCCCCCHHHHHHHHHHH
Q psy2300         162 ETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      +|||++|+|++++|+||.+.
T Consensus       170 ~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         170 MCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EeEecCCCChHHHHHHHHhh
Confidence            99999999999999999875

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd04151 Arl1 Arl1 subfamily

Probab=99.95  E-value=1.4e-27  Score=173.37  Aligned_cols=151  Identities=25%  Similarity=0.386  Sum_probs=113.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|++++|||||++++..+.+. .+.++.+.+..  .+..  ..+.+.+||+||++.+..++..++..+|++++|+|
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d   75 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTIPTIGFNVE--TVTY--KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVD   75 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcCCccCcCeE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEE
Confidence            6899999999999999999887764 34555554433  3322  44789999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHH-HhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l-~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ++++.++.....++..+ ......+.|+++|+||+|+.+..  ...+......     ..+.+++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  153 (158)
T cd04151          76 STDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHH
Confidence            99988887766655443 32323479999999999996542  2222221111     1224699999999999999999


Q ss_pred             HHHH
Q psy2300         177 RLVD  180 (221)
Q Consensus       177 ~i~~  180 (221)
                      +|.+
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9864

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>KOG0073|consensus

Probab=99.95  E-value=1.5e-26  Score=160.90  Aligned_cols=165  Identities=23%  Similarity=0.349  Sum_probs=132.6

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..+..++|+++|..|+||||++++|.+.. .....|+.+  +..+++..  +.+++.+||.+|+...++.|..|+..+|+
T Consensus        12 ~kerE~riLiLGLdNsGKTti~~kl~~~~-~~~i~pt~g--f~Iktl~~--~~~~L~iwDvGGq~~lr~~W~nYfestdg   86 (185)
T KOG0073|consen   12 LKEREVRILILGLDNSGKTTIVKKLLGED-TDTISPTLG--FQIKTLEY--KGYTLNIWDVGGQKTLRSYWKNYFESTDG   86 (185)
T ss_pred             hhhheeEEEEEecCCCCchhHHHHhcCCC-ccccCCccc--eeeEEEEe--cceEEEEEEcCCcchhHHHHHHhhhccCe
Confidence            34568999999999999999999999887 345666666  55555544  45889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHH-HhhCCCCCcEEEEEeCCCCCCCcc---cC-HHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDERV---IS-FERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l-~~~~~~~~p~ivv~nK~Dl~~~~~---~~-~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      +|+|+|.+|+..+++....+..+ ......+.|++|++||.|++.+-.   +. .-....+++..+++++-||+.+|+++
T Consensus        87 lIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l  166 (185)
T KOG0073|consen   87 LIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDL  166 (185)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccH
Confidence            99999999999998888755554 333346899999999999974311   11 11234455667889999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy2300         172 KGVFERLVDIICDKM  186 (221)
Q Consensus       172 ~~l~~~i~~~~~~~~  186 (221)
                      .+-++|++..+.++.
T Consensus       167 ~~gidWL~~~l~~r~  181 (185)
T KOG0073|consen  167 LEGIDWLCDDLMSRL  181 (185)
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999988753

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=3.2e-26  Score=168.70  Aligned_cols=143  Identities=38%  Similarity=0.666  Sum_probs=128.1

Q ss_pred             CCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC
Q psy2300          44 DSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS  123 (221)
Q Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~  123 (221)
                      +.|...+.+|.+.++....+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++.+|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            35667888999999988888888889999999999999999999999999999999999999999999999999887665


Q ss_pred             CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         124 WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       124 ~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ..+.|++||+||+|+.+.+.++.++...++..+++.++++||++|.|++++|++|++.+.+..
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            567899999999999776677888888888888889999999999999999999998876544

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.95  E-value=4.5e-27  Score=170.63  Aligned_cols=151  Identities=20%  Similarity=0.359  Sum_probs=119.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.+|||||||++++++..+ ....++.+.+...  +..  ..+.+.+||+||++.+...+..++..+|++++|+|
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D   75 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVET--VEY--KNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVD   75 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEE
Confidence            689999999999999999999873 4455666654433  333  24789999999999998899999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHHHHH
Q psy2300         103 VTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++++++.....|+..+.... ..+.|+++++||+|+....  ..++......     ...++++++||++|.|++++|+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          76 SSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999999888877765532 3589999999999986543  2333333322     2345899999999999999999


Q ss_pred             HHHH
Q psy2300         177 RLVD  180 (221)
Q Consensus       177 ~i~~  180 (221)
                      +|..
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            9875

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=8.8e-27  Score=170.60  Aligned_cols=152  Identities=26%  Similarity=0.418  Sum_probs=116.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC------CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF------TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +|+|+|++|+|||||+++|.+...      ...+.++.+....  .+..+  ...+.+||+||++.+..++..++..+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            589999999999999999986432      2233444444443  33333  4789999999999999889999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-------hCCeEEEEecCCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES-------LGVEFFETSAKDN  168 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~Sa~~~  168 (221)
                      +++|+|+++++++.....|+..+.... ..+.|+++++||+|+.+.  ...++...+...       .+++++++||++|
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  154 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEG  154 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCC
Confidence            999999999988888888777765432 357999999999998654  333444444332       2358999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVD  180 (221)
Q Consensus       169 ~gi~~l~~~i~~  180 (221)
                      +|++++++||.+
T Consensus       155 ~gv~e~~~~l~~  166 (167)
T cd04160         155 TGVREGIEWLVE  166 (167)
T ss_pred             cCHHHHHHHHhc
Confidence            999999999864

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=2.4e-26  Score=180.55  Aligned_cols=144  Identities=23%  Similarity=0.413  Sum_probs=124.3

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-------------eEEEEEEEeCCCcc
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-------------KRVKLQIWDTAGQE   81 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~i~D~~g~~   81 (221)
                      ..+....+||+|+|..|||||||+++|.++.+...+.+|.+.++....+.+++             ..+.+.|||++|++
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE   94 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE   94 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh
Confidence            56667889999999999999999999999998888889999888777666542             46889999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC------------CCCcEEEEEeCCCCCCCc---c---
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW------------DNAQVILVGNKCDMEDER---V---  143 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~------------~~~p~ivv~nK~Dl~~~~---~---  143 (221)
                      .|..++..++++++++|+|||++++.+++++..|+..+.....            .+.|++||+||+|+...+   .   
T Consensus        95 rfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~  174 (334)
T PLN00023         95 RYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSG  174 (334)
T ss_pred             hhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccc
Confidence            9999999999999999999999999999999999999976531            258999999999996542   2   


Q ss_pred             cCHHHHHHHHHHhCC
Q psy2300         144 ISFERGKHLAESLGV  158 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~  158 (221)
                      +..++++.+++.+++
T Consensus       175 ~~~e~a~~~A~~~g~  189 (334)
T PLN00023        175 NLVDAARQWVEKQGL  189 (334)
T ss_pred             ccHHHHHHHHHHcCC
Confidence            357889999998873

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.95  E-value=1.9e-26  Score=171.54  Aligned_cols=156  Identities=18%  Similarity=0.259  Sum_probs=120.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|.+|||||||++++.+..+. .+.++.+.+..  .+..  .++.+.+||+||+..+...+..++..+|+++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii   89 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLA-QHQPTQHPTSE--ELAI--GNIKFTTFDLGGHQQARRLWKDYFPEVNGIV   89 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCc-ccCCccccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            45699999999999999999999988753 34455544332  3333  3478999999999988889999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH------------hCCeEEEEec
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAES------------LGVEFFETSA  165 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa  165 (221)
                      +|+|++++.++.....++..+... ...+.|+++|+||+|++..  ++.++.......            ....+++|||
T Consensus        90 ~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~--~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa  167 (184)
T smart00178       90 YLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYA--ASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSV  167 (184)
T ss_pred             EEEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCC--CCHHHHHHHcCCCcccccccccCCceeEEEEeec
Confidence            999999999998888777766432 2357899999999998643  444554433311            1235899999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDI  181 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~  181 (221)
                      ++|.|++++++||.+.
T Consensus       168 ~~~~g~~~~~~wl~~~  183 (184)
T smart00178      168 VRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCChHHHHHHHHhh
Confidence            9999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=1.3e-25  Score=166.32  Aligned_cols=154  Identities=22%  Similarity=0.328  Sum_probs=113.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC-------CCCcccc------ceeeeeEEEEEEe-----CCeEEEEEEEeCCCccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS-------FTSAFVS------TVGIDFKVKTVFR-----HDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~-------~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~i~D~~g~~~~~   84 (221)
                      +|+++|++++|||||+++|++..       +...+.+      +.+.+........     ++..+.+.+|||||++.+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            68999999999999999998742       1112222      2234444333322     5567889999999999998


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC---eEE
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV---EFF  161 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~~~  161 (221)
                      ..+..++..+|++|+|+|++++.++.....|.....    .+.|+++|+||+|+.+..  .......+.+..++   .++
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~----~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~  155 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE----NNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAI  155 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH----cCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEE
Confidence            888889999999999999998766666655544332    378999999999986432  12223445555555   489


Q ss_pred             EEecCCCCCHHHHHHHHHHHH
Q psy2300         162 ETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++||++|.|++++|++|.+.+
T Consensus       156 ~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         156 LVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EeeccCCCCHHHHHHHHHhhC
Confidence            999999999999999998754

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=1.1e-25  Score=162.83  Aligned_cols=151  Identities=22%  Similarity=0.444  Sum_probs=119.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEEC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDV  103 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~  103 (221)
                      |+++|++|||||||++++.+..+...+.++.+.....  +...  .+.+.+||+||++.+..++..++..+|++++|+|+
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~   77 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDA   77 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEEC
Confidence            7999999999999999999999888887877755543  3333  37899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHHHHHHH
Q psy2300         104 TNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       104 ~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++..++.....|+..+... ...+.|+++|+||+|+.+....  .+.....     ....++++++|+++|.|+++++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  155 (159)
T cd04159          78 ADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDW  155 (159)
T ss_pred             CCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEeccCCChHHHHHH
Confidence            9998888877766665432 2347899999999998654322  2221111     112357899999999999999999


Q ss_pred             HHH
Q psy2300         178 LVD  180 (221)
Q Consensus       178 i~~  180 (221)
                      |.+
T Consensus       156 l~~  158 (159)
T cd04159         156 LIK  158 (159)
T ss_pred             Hhh
Confidence            875

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>KOG0070|consensus

Probab=99.94  E-value=6.4e-26  Score=161.68  Aligned_cols=160  Identities=19%  Similarity=0.353  Sum_probs=131.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ....+|+++|..+|||||++++|..+.+... .||.|.......+    .++++++||.+|++.++.+|..|+...+++|
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~y----kn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lI   89 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVETVEY----KNISFTVWDVGGQEKLRPLWKHYFQNTQGLI   89 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccC-CCccccceeEEEE----cceEEEEEecCCCcccccchhhhccCCcEEE
Confidence            4579999999999999999999998886444 7888865555555    3688999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-----hCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES-----LGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~gi~  172 (221)
                      ||+|.+|++.+..++..+..+.... ..+.|+++++||.|++++-  +..++......     ....+..|+|.+|+|+.
T Consensus        90 fVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~al--s~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~  167 (181)
T KOG0070|consen   90 FVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGAL--SAAEITNKLGLHSLRSRNWHIQSTCAISGEGLY  167 (181)
T ss_pred             EEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccC--CHHHHHhHhhhhccCCCCcEEeeccccccccHH
Confidence            9999999999999988766665544 4789999999999997653  33333333322     23568899999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      +.++|+.+.+..+
T Consensus       168 egl~wl~~~~~~~  180 (181)
T KOG0070|consen  168 EGLDWLSNNLKKR  180 (181)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999887653

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.94  E-value=3e-25  Score=162.62  Aligned_cols=155  Identities=21%  Similarity=0.177  Sum_probs=107.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc---------cchhhccC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT---------ITTAYYRG   93 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---------~~~~~~~~   93 (221)
                      +|+++|.+|+|||||+++|++..+.....+  +.+............+.+.+|||||......         ........
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   79 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAPYP--FTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHL   79 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCCCC--CcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhc
Confidence            799999999999999999999876432222  2222222222233457899999999742110         00111123


Q ss_pred             CcEEEEEEECCChhh--HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          94 AMGFILMYDVTNEES--FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s--~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      +|++++|+|+++..+  ++....|+..+.... .+.|+++|+||+|+.+...+.  +...+....+.+++++||++|.|+
T Consensus        80 ~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~gi  156 (168)
T cd01897          80 RAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLS--EIEEEEELEGEEVLKISTLTEEGV  156 (168)
T ss_pred             cCcEEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHH--HHHHhhhhccCceEEEEecccCCH
Confidence            689999999998754  355556777775543 479999999999996544332  244455555678999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         172 KGVFERLVDII  182 (221)
Q Consensus       172 ~~l~~~i~~~~  182 (221)
                      +++|+++.+.+
T Consensus       157 ~~l~~~l~~~~  167 (168)
T cd01897         157 DEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.94  E-value=2.8e-25  Score=178.16  Aligned_cols=164  Identities=16%  Similarity=0.135  Sum_probs=118.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-------ccccchhhccC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-------YRTITTAYYRG   93 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~   93 (221)
                      ...|+|||.||||||||+++|++........+.++.......+.+. ....+.+||+||.-.       ....+..+++.
T Consensus       158 ~adVglVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~  236 (335)
T PRK12299        158 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIER  236 (335)
T ss_pred             cCCEEEEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhh
Confidence            3569999999999999999999876322222222222223333332 234689999999532       11222335667


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      ++++++|+|+++.++++.+..|...+..+..  .+.|+++|+||+|+.+......+....+....+.+++++||++++|+
T Consensus       237 a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI  316 (335)
T PRK12299        237 TRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGL  316 (335)
T ss_pred             cCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCH
Confidence            9999999999988889999999999877642  47899999999999765444333444455556688999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2300         172 KGVFERLVDIICDK  185 (221)
Q Consensus       172 ~~l~~~i~~~~~~~  185 (221)
                      ++++++|.+.+.+.
T Consensus       317 ~eL~~~L~~~l~~~  330 (335)
T PRK12299        317 DELLRALWELLEEA  330 (335)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999887653

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=5.3e-25  Score=161.54  Aligned_cols=157  Identities=17%  Similarity=0.216  Sum_probs=110.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----cccccchhh---ccCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----RYRTITTAY---YRGAM   95 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~---~~~~d   95 (221)
                      .|+++|.+|||||||+++|.+........+..+.......+..++ ...+.+|||||..    ....+...+   +..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            589999999999999999997653211111111111222222222 2479999999963    222233333   34699


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-hCCeEEEEecCCCCCH
Q psy2300          96 GFILMYDVTNE-ESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVISFERGKHLAES-LGVEFFETSAKDNVNV  171 (221)
Q Consensus        96 ~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi  171 (221)
                      ++++|+|++++ .++..+..|+..+.....  .+.|+++|+||+|+...... .+....+... .+.+++++|++++.|+
T Consensus        81 ~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi  159 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGL  159 (170)
T ss_pred             EEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCH
Confidence            99999999999 789998889888866532  37899999999999665443 2334444444 3678999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         172 KGVFERLVDI  181 (221)
Q Consensus       172 ~~l~~~i~~~  181 (221)
                      +++|++|.+.
T Consensus       160 ~~l~~~i~~~  169 (170)
T cd01898         160 DELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999998865

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>cd04155 Arl3 Arl3 subfamily

Probab=99.93  E-value=1.8e-24  Score=159.21  Aligned_cols=155  Identities=20%  Similarity=0.287  Sum_probs=115.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|++|||||||++++.+..+. .+.++.+.+..  .+..+  +..+.+||++|+..+...+..++..+|+++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~~--~i~~~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii   86 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDIS-HITPTQGFNIK--TVQSD--GFKLNVWDIGGQRAIRPYWRNYFENTDCLI   86 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            34799999999999999999999987653 34555554433  33333  367899999999888888888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-----CeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-----VEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++..++.....++..+... ...+.|+++++||+|+.+...  .++.........     .+++++||++|+|++
T Consensus        87 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~  164 (173)
T cd04155          87 YVIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAP--AEEIAEALNLHDLRDRTWHIQACSAKTGEGLQ  164 (173)
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCC--HHHHHHHcCCcccCCCeEEEEEeECCCCCCHH
Confidence            999999988888877766655332 234799999999999855322  222222111111     247899999999999


Q ss_pred             HHHHHHHH
Q psy2300         173 GVFERLVD  180 (221)
Q Consensus       173 ~l~~~i~~  180 (221)
                      ++|+||.+
T Consensus       165 ~~~~~l~~  172 (173)
T cd04155         165 EGMNWVCK  172 (173)
T ss_pred             HHHHHHhc
Confidence            99999875

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd01878 HflX HflX subfamily

Probab=99.93  E-value=7.9e-25  Score=165.47  Aligned_cols=157  Identities=17%  Similarity=0.169  Sum_probs=113.4

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc---------ccccch
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER---------YRTITT   88 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~   88 (221)
                      .++.++|+|+|++|||||||++++++..+.....+..+.+.....+..++. ..+.+|||||...         +...+ 
T Consensus        38 ~~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-  115 (204)
T cd01878          38 RSGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-  115 (204)
T ss_pred             hcCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-
Confidence            356789999999999999999999998643332222333333333433332 3789999999632         11111 


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      ..+..+|++++|+|++++.++.....|...+......+.|+++|+||+|+.+.....     ......+.+++++||+++
T Consensus       116 ~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~  190 (204)
T cd01878         116 EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTG  190 (204)
T ss_pred             HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCC
Confidence            235689999999999998888887777777766554578999999999996543221     334445568999999999


Q ss_pred             CCHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDI  181 (221)
Q Consensus       169 ~gi~~l~~~i~~~  181 (221)
                      .|+++++++|.+.
T Consensus       191 ~gi~~l~~~L~~~  203 (204)
T cd01878         191 EGLDELLEAIEEL  203 (204)
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999998765

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.93  E-value=3.3e-24  Score=154.69  Aligned_cols=158  Identities=26%  Similarity=0.412  Sum_probs=125.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|+|||||++++....++..+.++.+.++....+..++..+.+.+||+||+..+..++..++..++.++++
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            37999999999999999999999987777777777777776676766668899999999998888888888999999999


Q ss_pred             EECCCh-hhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         101 YDVTNE-ESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       101 ~d~~~~-~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|.... .++.... .|...+......+.|+++++||+|+.... ........+......+++++||++|.|+.+++++|
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            998876 6666555 56666665553488999999999996543 22233333333345689999999999999999986


Q ss_pred             H
Q psy2300         179 V  179 (221)
Q Consensus       179 ~  179 (221)
                      .
T Consensus       160 ~  160 (161)
T TIGR00231       160 E  160 (161)
T ss_pred             h
Confidence            3

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>cd04171 SelB SelB subfamily

Probab=99.93  E-value=1.7e-24  Score=157.82  Aligned_cols=151  Identities=17%  Similarity=0.152  Sum_probs=103.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC---CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS---FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      .|+++|.+|+|||||+++|++..   +..+..+..+.+.....+.... ...+.+|||||++.+......++..+|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            68999999999999999999642   3222233333333333343332 4579999999998887666677889999999


Q ss_pred             EEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--cCHHHHHHHHHH---hCCeEEEEecCCCCCH
Q psy2300         100 MYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--ISFERGKHLAES---LGVEFFETSAKDNVNV  171 (221)
Q Consensus       100 v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~Sa~~~~gi  171 (221)
                      |+|+++   +++.+.+    ..+...  ...|+++++||+|+.+...  ...++.......   .+.+++++||++|.|+
T Consensus        81 V~d~~~~~~~~~~~~~----~~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  154 (164)
T cd04171          81 VVAADEGIMPQTREHL----EILELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGI  154 (164)
T ss_pred             EEECCCCccHhHHHHH----HHHHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCH
Confidence            999987   3333322    222222  1349999999999965421  112333344443   3578999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         172 KGVFERLVD  180 (221)
Q Consensus       172 ~~l~~~i~~  180 (221)
                      +++++++.+
T Consensus       155 ~~l~~~l~~  163 (164)
T cd04171         155 EELKEYLDE  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999998754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.92  E-value=1.7e-24  Score=154.38  Aligned_cols=134  Identities=22%  Similarity=0.326  Sum_probs=99.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-----cccccchhhccCCcEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-----RYRTITTAYYRGAMGF   97 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-----~~~~~~~~~~~~~d~v   97 (221)
                      ||+++|++|+|||||+++|.+..+  .+.++.+.++            .-.+|||||..     .+..+.. .++.+|++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~--~~~~t~~~~~------------~~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~v   66 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI--LYKKTQAVEY------------NDGAIDTPGEYVENRRLYSALIV-TAADADVI   66 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc--ccccceeEEE------------cCeeecCchhhhhhHHHHHHHHH-HhhcCCEE
Confidence            899999999999999999998764  2333332221            11689999972     2333333 47899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~  176 (221)
                      ++|+|++++.++... .|...+      ..|+++|+||+|+.+. ....++..++++..+. +++++||++|.|++++|+
T Consensus        67 ilv~d~~~~~s~~~~-~~~~~~------~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        67 ALVQSATDPESRFPP-GFASIF------VKPVIGLVTKIDLAEA-DVDIERAKELLETAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             EEEecCCCCCcCCCh-hHHHhc------cCCeEEEEEeeccCCc-ccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHH
Confidence            999999999887552 343321      3499999999999653 3345666777777776 799999999999999999


Q ss_pred             HHH
Q psy2300         177 RLV  179 (221)
Q Consensus       177 ~i~  179 (221)
                      ++.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            874

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.92  E-value=1.1e-23  Score=154.29  Aligned_cols=157  Identities=18%  Similarity=0.147  Sum_probs=108.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      .|+|+|.+|+|||||+++|....+.....+..+.+.....+..+ .....+.+|||||++.+..++..++..+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            58999999999999999999887655433333333333333332 13568999999999988888888899999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH-HHHHHHHH------HhCCeEEEEecCCCCCHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF-ERGKHLAE------SLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~-~~~~~~~~------~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      |+++....... ..+..+..   .+.|+++|+||+|+........ +....+..      ....+++++|+++|.|+.++
T Consensus        82 d~~~~~~~~~~-~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  157 (168)
T cd01887          82 AADDGVMPQTI-EAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDL  157 (168)
T ss_pred             ECCCCccHHHH-HHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHH
Confidence            99874322221 12222333   3789999999999864321111 11111111      11357999999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         175 FERLVDIIC  183 (221)
Q Consensus       175 ~~~i~~~~~  183 (221)
                      +++|.+...
T Consensus       158 ~~~l~~~~~  166 (168)
T cd01887         158 LEAILLLAE  166 (168)
T ss_pred             HHHHHHhhh
Confidence            999987643

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.92  E-value=4.3e-24  Score=160.17  Aligned_cols=160  Identities=21%  Similarity=0.206  Sum_probs=112.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc--CCCCCcc------------ccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD--DSFTSAF------------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      -+|+++|.+++|||||+++|+.  +.+....            ..+.+.+.......+....+.+.+|||||++.+...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            4799999999999999999997  4443322            2334555555555555566889999999999998889


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc-cCHHHHHHHHHH-------hCCe
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV-ISFERGKHLAES-------LGVE  159 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~-~~~~~~~~~~~~-------~~~~  159 (221)
                      ..+++.+|++++|+|+++.. +.....++..+..   .+.|+++++||+|+.+... ...++...+...       .+++
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFP  158 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccC
Confidence            99999999999999998742 2333344444433   3789999999999964322 112334444322       2578


Q ss_pred             EEEEecCCCCCHHHH------HHHHHHHHHHh
Q psy2300         160 FFETSAKDNVNVKGV------FERLVDIICDK  185 (221)
Q Consensus       160 ~~~~Sa~~~~gi~~l------~~~i~~~~~~~  185 (221)
                      ++++||++|.|+.++      +++|++.+..+
T Consensus       159 iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~  190 (194)
T cd01891         159 VLYASAKNGWASLNLEDPSEDLEPLFDTIIEH  190 (194)
T ss_pred             EEEeehhccccccccccchhhHHHHHHHHHhc
Confidence            999999999888544      44555555443

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.92  E-value=3.3e-23  Score=148.15  Aligned_cols=153  Identities=50%  Similarity=0.828  Sum_probs=120.8

Q ss_pred             EEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECC
Q psy2300          26 IIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        26 vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                      |+|++|+|||||++++.+... .....++. .+..............+.+||+||...+...+..++..+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999999886 44444555 6666777766667789999999998888777788899999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHhhCCCCCcEEEEEeCCCCCCCcccCHHH-HHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         105 NEESFTSIQDWI-TQIKTYSWDNAQVILVGNKCDMEDERVISFER-GKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       105 ~~~s~~~~~~~~-~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ++.++..+..|. ..+......+.|+++++||+|+.......... ..........+++++|+.++.|+.+++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            999988888772 22333345689999999999996654433222 3344455567999999999999999999875

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>PRK04213 GTP-binding protein; Provisional

Probab=99.91  E-value=5.6e-24  Score=160.42  Aligned_cols=154  Identities=19%  Similarity=0.201  Sum_probs=104.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC-----------cccccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG-----------QERYRTIT   87 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~   87 (221)
                      ...++|+++|.+|+|||||+++|.+..+.....+  ++++........    .+.+|||||           .+.+...+
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~~--~~t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKRP--GVTRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEI   80 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCC--ceeeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHH
Confidence            4568999999999999999999998876544334  445554444332    589999999           34555555


Q ss_pred             hhhcc----CCcEEEEEEECCChhhHH----------HHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH
Q psy2300          88 TAYYR----GAMGFILMYDVTNEESFT----------SIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA  153 (221)
Q Consensus        88 ~~~~~----~~d~vi~v~d~~~~~s~~----------~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~  153 (221)
                      ..++.    .++++++|+|.++...+.          ....+...+..   .+.|+++|+||+|+.+..   .+...++.
T Consensus        81 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~~~~---~~~~~~~~  154 (201)
T PRK04213         81 VRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKIKNR---DEVLDEIA  154 (201)
T ss_pred             HHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECccccCcH---HHHHHHHH
Confidence            44543    467888999876532110          00111222222   379999999999996543   23344555


Q ss_pred             HHhCC---------eEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         154 ESLGV---------EFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       154 ~~~~~---------~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ...++         +++++||++| |+++++++|.+.+.+.
T Consensus       155 ~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~  194 (201)
T PRK04213        155 ERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEA  194 (201)
T ss_pred             HHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCc
Confidence            55554         4899999999 9999999998876543

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.91  E-value=6.4e-23  Score=156.59  Aligned_cols=166  Identities=35%  Similarity=0.594  Sum_probs=135.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|+.|||||||+++|..+.+...+.++.+..+...........+.+.+|||+|++.++.++..++.+++++++|
T Consensus         5 ~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~   84 (219)
T COG1100           5 EFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIV   84 (219)
T ss_pred             eEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEE
Confidence            39999999999999999999999999888888887777766666655578899999999999999999999999999999


Q ss_pred             EECCC-hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHh---CCeEEEEe
Q psy2300         101 YDVTN-EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESL---GVEFFETS  164 (221)
Q Consensus       101 ~d~~~-~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~---~~~~~~~S  164 (221)
                      +|..+ ..+++....|...+........|+++++||+|+....            ..............   ...++++|
T Consensus        85 ~d~~~~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  164 (219)
T COG1100          85 YDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETS  164 (219)
T ss_pred             EecccchhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEee
Confidence            99998 5566666679999888765579999999999997653            22222222222222   23489999


Q ss_pred             cC--CCCCHHHHHHHHHHHHHHhh
Q psy2300         165 AK--DNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       165 a~--~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ++  ++.++.++|..+...+.+..
T Consensus       165 ~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         165 AKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             cccCCCcCHHHHHHHHHHHHHHhh
Confidence            99  99999999999999887554

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.91  E-value=2.3e-23  Score=168.40  Aligned_cols=155  Identities=18%  Similarity=0.147  Sum_probs=111.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc---------cccccchh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE---------RYRTITTA   89 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~~   89 (221)
                      +..++|+++|.+|+|||||+|+|++..+.....+..+.+.....+.+++ +..+.+|||+|..         .+...+ .
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G~~~~l~~~lie~f~~tl-e  264 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVGFIRDLPHELVAAFRATL-E  264 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCcccccCCHHHHHHHHHHH-H
Confidence            3558999999999999999999999875333333333334444555533 2478999999962         222222 2


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      .+..+|++++|+|++++.++.++..|...+......+.|+++|+||+|+.....     .... .....+++++||++|.
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~~~-----v~~~-~~~~~~~i~iSAktg~  338 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDEPR-----IERL-EEGYPEAVFVSAKTGE  338 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCChHh-----HHHH-HhCCCCEEEEEccCCC
Confidence            478899999999999998888877777766665445789999999999954322     1111 1122468999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDI  181 (221)
Q Consensus       170 gi~~l~~~i~~~  181 (221)
                      |+++++++|.+.
T Consensus       339 GI~eL~~~I~~~  350 (351)
T TIGR03156       339 GLDLLLEAIAER  350 (351)
T ss_pred             CHHHHHHHHHhh
Confidence            999999998764

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.91  E-value=1e-24  Score=155.57  Aligned_cols=148  Identities=20%  Similarity=0.257  Sum_probs=100.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc------cccchhhc--cC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY------RTITTAYY--RG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------~~~~~~~~--~~   93 (221)
                      |+|+++|.||+|||||+|+|++....  ....+|+|.......+...+..+.++|+||--..      ......++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~--v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQK--VGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEE--EEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCce--ecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            68999999999999999999999843  3444455554444333222367999999993222      22233343  68


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      .|++++|+|+++.+.-   ..+..++.+.   +.|+++++||+|......+.. +...+.+..+++++++||++++|+++
T Consensus        79 ~D~ii~VvDa~~l~r~---l~l~~ql~e~---g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~  151 (156)
T PF02421_consen   79 PDLIIVVVDATNLERN---LYLTLQLLEL---GIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDE  151 (156)
T ss_dssp             SSEEEEEEEGGGHHHH---HHHHHHHHHT---TSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHH
T ss_pred             CCEEEEECCCCCHHHH---HHHHHHHHHc---CCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHH
Confidence            9999999999875422   2233444443   899999999999855444332 35666777899999999999999999


Q ss_pred             HHHHH
Q psy2300         174 VFERL  178 (221)
Q Consensus       174 l~~~i  178 (221)
                      +++.|
T Consensus       152 L~~~I  156 (156)
T PF02421_consen  152 LKDAI  156 (156)
T ss_dssp             HHHHH
T ss_pred             HHhhC
Confidence            99875

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.91  E-value=2.8e-23  Score=150.47  Aligned_cols=147  Identities=20%  Similarity=0.220  Sum_probs=109.0

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc------cchhhcc--CCcEE
Q psy2300          26 IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT------ITTAYYR--GAMGF   97 (221)
Q Consensus        26 vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~~--~~d~v   97 (221)
                      |+|.+|+|||||++++++..+.....+..+.+.....+..++  ..+.+|||||...+..      ++..++.  .+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            589999999999999998865444445444445555555554  5789999999876553      2455554  89999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|+.++....   .+...+...   +.|+++++||+|+.+...+.. ....+....+.+++++|+.+|.|+++++++
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~~---~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLEL---GLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHHc---CCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            9999998765432   344444433   799999999999976544433 345666677889999999999999999999


Q ss_pred             HHHH
Q psy2300         178 LVDI  181 (221)
Q Consensus       178 i~~~  181 (221)
                      +.+.
T Consensus       152 l~~~  155 (158)
T cd01879         152 IAEL  155 (158)
T ss_pred             HHHH
Confidence            8875

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.91  E-value=3.2e-23  Score=166.20  Aligned_cols=160  Identities=18%  Similarity=0.175  Sum_probs=113.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc----cccch---hhccC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY----RTITT---AYYRG   93 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~----~~~~~---~~~~~   93 (221)
                      ...|+|+|.||||||||+++|+.........+.++.......+.+++ ...+.+||+||....    ..+..   .++..
T Consensus       157 ~adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhier  235 (329)
T TIGR02729       157 LADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIER  235 (329)
T ss_pred             cccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHh
Confidence            45699999999999999999998763222222222222233333332 367899999996421    12222   33557


Q ss_pred             CcEEEEEEECCCh---hhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          94 AMGFILMYDVTNE---ESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        94 ~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      ++++++|+|+++.   ++++.+..|...+..+.  ..+.|++||+||+|+.+... ..+..+.+.+..+.+++++||+++
T Consensus       236 ad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg  314 (329)
T TIGR02729       236 TRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTG  314 (329)
T ss_pred             hCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCC
Confidence            9999999999976   67888888888876653  24789999999999966533 223344555566788999999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDII  182 (221)
Q Consensus       169 ~gi~~l~~~i~~~~  182 (221)
                      +|+++++++|.+.+
T Consensus       315 ~GI~eL~~~I~~~l  328 (329)
T TIGR02729       315 EGLDELLYALAELL  328 (329)
T ss_pred             cCHHHHHHHHHHHh
Confidence            99999999998754

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>KOG0071|consensus

Probab=99.91  E-value=2.5e-23  Score=141.22  Aligned_cols=156  Identities=22%  Similarity=0.382  Sum_probs=126.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+.+|..++||||++.+|+.+.. ....||.|...  .++++  +++.+.+||.+|++..+.+|++|+.+..++||
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnv--etVty--kN~kfNvwdvGGqd~iRplWrhYy~gtqglIF   90 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNV--ETVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF   90 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCC-cccccccceeE--EEEEe--eeeEEeeeeccCchhhhHHHHhhccCCceEEE
Confidence            478999999999999999999998873 45566666444  44433  56889999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-----hCCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAES-----LGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~gi~~  173 (221)
                      |+|..+.+.++++++.+..+-. ......|++|.+||.|++.+.  ++.++..+...     ..+.+.++++.+|.|+.+
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~--~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~e  168 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAM--KPQEIQDKLELERIRDRNWYVQPSCALSGDGLKE  168 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccccc--CHHHHHHHhccccccCCccEeeccccccchhHHH
Confidence            9999999888888886655533 335689999999999997763  45555555432     235788999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         174 VFERLVDII  182 (221)
Q Consensus       174 l~~~i~~~~  182 (221)
                      -|.||++.+
T Consensus       169 glswlsnn~  177 (180)
T KOG0071|consen  169 GLSWLSNNL  177 (180)
T ss_pred             HHHHHHhhc
Confidence            999998765

>TIGR00436 era GTP-binding protein Era

Probab=99.91  E-value=3.3e-23  Score=162.84  Aligned_cols=152  Identities=14%  Similarity=0.090  Sum_probs=104.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEE-EEEeCCeEEEEEEEeCCCccccc-c-------cchhhccC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVK-TVFRHDKRVKLQIWDTAGQERYR-T-------ITTAYYRG   93 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~i~D~~g~~~~~-~-------~~~~~~~~   93 (221)
                      +|+|+|.+|+|||||+|+|++..+.. ..+..+++.... .+... ...++.||||||..... .       ....++..
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~-vs~~~~TTr~~i~~i~~~-~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~   79 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISI-TSPKAQTTRNRISGIHTT-GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGG   79 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEee-cCCCCCcccCcEEEEEEc-CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhh
Confidence            68999999999999999999987532 122222333222 22222 23578999999964321 1       12345789


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVK  172 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~  172 (221)
                      +|++++|+|+++..+..  ..++..+..   .+.|+++|+||+|+.+.... .+....+....+. +++++||++|.|++
T Consensus        80 aDvvl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        80 VDLILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             CCEEEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            99999999999876553  334444444   37899999999999643221 2233344444444 79999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      +++++|.+.+
T Consensus       154 ~L~~~l~~~l  163 (270)
T TIGR00436       154 FLAAFIEVHL  163 (270)
T ss_pred             HHHHHHHHhC
Confidence            9999987765

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>KOG0075|consensus

Probab=99.90  E-value=1.2e-23  Score=143.83  Aligned_cols=154  Identities=23%  Similarity=0.446  Sum_probs=124.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+.+.++|..++|||||++.+..+.+.....|+.|...  .+++  .+.+.+.+||.||+..++.+|+.|.+++++++||
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnm--rk~t--kgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNM--RKVT--KGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhccccccee--EEec--cCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            46789999999999999999999988888888888444  3332  2557899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHH-HHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--------CeEEEEecCCCCCH
Q psy2300         101 YDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG--------VEFFETSAKDNVNV  171 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~-l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~~Sa~~~~gi  171 (221)
                      +|+.|++.++-.+..+.. +.+....+.|++|++||.|++++  ++....   ..+.|        +..|.+|+++..||
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~A--L~~~~l---i~rmgL~sitdREvcC~siScke~~Ni  170 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGA--LSKIAL---IERMGLSSITDREVCCFSISCKEKVNI  170 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCccc--ccHHHH---HHHhCccccccceEEEEEEEEcCCccH
Confidence            999999888777764444 45555679999999999999775  232222   22333        45889999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2300         172 KGVFERLVDIIC  183 (221)
Q Consensus       172 ~~l~~~i~~~~~  183 (221)
                      +.+.+||++...
T Consensus       171 d~~~~Wli~hsk  182 (186)
T KOG0075|consen  171 DITLDWLIEHSK  182 (186)
T ss_pred             HHHHHHHHHHhh
Confidence            999999988654

>PRK15494 era GTPase Era; Provisional

Probab=99.90  E-value=6.3e-23  Score=165.60  Aligned_cols=154  Identities=19%  Similarity=0.267  Sum_probs=106.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEE--EEEEeCCeEEEEEEEeCCCcc-cccccc-------h
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV--KTVFRHDKRVKLQIWDTAGQE-RYRTIT-------T   88 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~D~~g~~-~~~~~~-------~   88 (221)
                      ...++|+++|.+|+|||||+++|++..+.. +.+..+++...  ..+..+  +.++.||||||.. .+..+.       .
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~i-vs~k~~tTr~~~~~~~~~~--~~qi~~~DTpG~~~~~~~l~~~~~r~~~  126 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSI-VTPKVQTTRSIITGIITLK--DTQVILYDTPGIFEPKGSLEKAMVRCAW  126 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceee-ccCCCCCccCcEEEEEEeC--CeEEEEEECCCcCCCcccHHHHHHHHHH
Confidence            356799999999999999999999887632 22333333322  223333  3578999999974 222222       1


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEec
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSA  165 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa  165 (221)
                      ..+..+|++++|+|..+  ++.... .|+..+...   +.|.++|+||+|+.+.   ...+...++...+  ..++++||
T Consensus       127 ~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~~---~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSA  198 (339)
T PRK15494        127 SSLHSADLVLLIIDSLK--SFDDITHNILDKLRSL---NIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISA  198 (339)
T ss_pred             HHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHhc---CCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEec
Confidence            24679999999999765  333343 355555443   5677889999999643   2344555555443  57999999


Q ss_pred             CCCCCHHHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~~~  183 (221)
                      ++|.|+++++++|.+.+.
T Consensus       199 ktg~gv~eL~~~L~~~l~  216 (339)
T PRK15494        199 LSGKNIDGLLEYITSKAK  216 (339)
T ss_pred             cCccCHHHHHHHHHHhCC
Confidence            999999999999887654

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.90  E-value=3.2e-23  Score=152.77  Aligned_cols=155  Identities=21%  Similarity=0.259  Sum_probs=106.1

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----ccccc---hhhccCCcEEE
Q psy2300          26 IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YRTIT---TAYYRGAMGFI   98 (221)
Q Consensus        26 vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~---~~~~~~~d~vi   98 (221)
                      ++|++|+|||||+++|.+..+.....+..+.+.....+..+ ....+.+|||||...    ...++   ...+..+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            58999999999999999986422212222222222223333 146789999999632    22222   23467899999


Q ss_pred             EEEECCCh------hhHHHHHHHHHHHHhhCC-------CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEec
Q psy2300          99 LMYDVTNE------ESFTSIQDWITQIKTYSW-------DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSA  165 (221)
Q Consensus        99 ~v~d~~~~------~s~~~~~~~~~~l~~~~~-------~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  165 (221)
                      +|+|+.+.      .++.....|...+.....       .+.|+++|+||+|+..................+..++++|+
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  159 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISA  159 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEeh
Confidence            99999987      577777777777754431       37999999999999655443322222333344568999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDI  181 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~  181 (221)
                      +++.|++++++++.+.
T Consensus       160 ~~~~gl~~l~~~l~~~  175 (176)
T cd01881         160 KTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhcCHHHHHHHHHhh
Confidence            9999999999998764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=3.1e-22  Score=164.51  Aligned_cols=159  Identities=14%  Similarity=0.151  Sum_probs=113.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe-EEEEEEEeCCCccc----ccccchh---hccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQER----YRTITTA---YYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~----~~~~~~~---~~~~   93 (221)
                      ..|+|+|.||||||||+++|++....  ....+++|..+....+... ...+.+||+||...    ...+...   ++..
T Consensus       159 adVglVG~pNaGKSTLLn~Lt~ak~k--Ia~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhier  236 (424)
T PRK12297        159 ADVGLVGFPNVGKSTLLSVVSNAKPK--IANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIER  236 (424)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHcCCCc--cccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHHhh
Confidence            37999999999999999999987632  2222233333332222212 35799999999532    2223333   3556


Q ss_pred             CcEEEEEEECCCh---hhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          94 AMGFILMYDVTNE---ESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        94 ~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      ++++++|+|+++.   +.+++...|...+..+..  .+.|++||+||+|+...    .+....+.+..+.+++++||+++
T Consensus       237 ~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tg  312 (424)
T PRK12297        237 TRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTG  312 (424)
T ss_pred             CCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCC
Confidence            9999999999864   677777778888876542  47899999999998432    23445555556678999999999


Q ss_pred             CCHHHHHHHHHHHHHHhh
Q psy2300         169 VNVKGVFERLVDIICDKM  186 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~~~  186 (221)
                      +|+++++++|.+.+.+..
T Consensus       313 eGI~eL~~~L~~~l~~~~  330 (424)
T PRK12297        313 QGLDELLYAVAELLEETP  330 (424)
T ss_pred             CCHHHHHHHHHHHHHhCc
Confidence            999999999998876543

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.90  E-value=2.1e-22  Score=145.47  Aligned_cols=147  Identities=20%  Similarity=0.200  Sum_probs=103.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc--------chhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI--------TTAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~~~   93 (221)
                      ++|+++|++|+|||||++++++..... ..+..+++..............+.+|||||...+...        ...++..
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~   80 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAI-VSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEE   80 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEe-ccCCCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhh
Confidence            589999999999999999999876321 1122222222222222223457899999996544321        2245678


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      +|++++|+|++++.+......+..      ..+.|+++|+||+|+.+....       .....+.+++++||+++.|+++
T Consensus        81 ~~~~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~  147 (157)
T cd04164          81 ADLVLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDE  147 (157)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHH
Confidence            999999999998777766554332      248999999999998654432       2334457899999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         174 VFERLVDII  182 (221)
Q Consensus       174 l~~~i~~~~  182 (221)
                      ++++|.+.+
T Consensus       148 l~~~l~~~~  156 (157)
T cd04164         148 LKEALLELA  156 (157)
T ss_pred             HHHHHHHhh
Confidence            999987754

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.90  E-value=1.6e-22  Score=168.27  Aligned_cols=165  Identities=15%  Similarity=0.172  Sum_probs=112.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----cccc---chhhcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YRTI---TTAYYR   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~---~~~~~~   92 (221)
                      ....|+|||.||||||||+++|++....  ....+++|..+....+......+.+||+||...    ...+   ...++.
T Consensus       158 ~~adV~LVG~PNAGKSTLln~Ls~akpk--IadypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhie  235 (500)
T PRK12296        158 SVADVGLVGFPSAGKSSLISALSAAKPK--IADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIE  235 (500)
T ss_pred             ccceEEEEEcCCCCHHHHHHHHhcCCcc--ccccCcccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHH
Confidence            3467999999999999999999987632  222233333333333333346799999999421    1111   223467


Q ss_pred             CCcEEEEEEECCC----hhhHHHHHHHHHHHHhhC-----------CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC
Q psy2300          93 GAMGFILMYDVTN----EESFTSIQDWITQIKTYS-----------WDNAQVILVGNKCDMEDERVISFERGKHLAESLG  157 (221)
Q Consensus        93 ~~d~vi~v~d~~~----~~s~~~~~~~~~~l~~~~-----------~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~  157 (221)
                      .+|++|+|+|+++    ++.+.++..+...+..+.           ..+.|++||+||+|+++..... +.........+
T Consensus       236 radvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~g  314 (500)
T PRK12296        236 RCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELA-EFVRPELEARG  314 (500)
T ss_pred             hcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHH-HHHHHHHHHcC
Confidence            8999999999975    335555555555554432           2478999999999997544322 22333344557


Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         158 VEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       158 ~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      ++++++||++++|+++++.+|.+.+.....
T Consensus       315 ~~Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        315 WPVFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            899999999999999999999998876543

>cd01894 EngA1 EngA1 subfamily

Probab=99.89  E-value=1.1e-22  Score=146.99  Aligned_cols=146  Identities=19%  Similarity=0.156  Sum_probs=99.6

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc--------cchhhccCCc
Q psy2300          25 LIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT--------ITTAYYRGAM   95 (221)
Q Consensus        25 ~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~~~d   95 (221)
                      +++|.+|+|||||+++|++.... ....+..+.+........  .+..+.+|||||...+..        .+...+..+|
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d   78 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEW--GGREFILIDTGGIEPDDEGISKEIREQAELAIEEAD   78 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEE--CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCC
Confidence            48999999999999999987521 111222222223333333  336799999999876543        2345678899


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l  174 (221)
                      ++++|+|+.++.+.... .+...+..   .+.|+++|+||+|+.+....     .......+. +++++|+++|.|++++
T Consensus        79 ~ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          79 VILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            99999999876544332 22333333   26999999999999664322     222334555 7899999999999999


Q ss_pred             HHHHHHH
Q psy2300         175 FERLVDI  181 (221)
Q Consensus       175 ~~~i~~~  181 (221)
                      +++|.+.
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9999875

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.89  E-value=4.5e-22  Score=149.35  Aligned_cols=165  Identities=16%  Similarity=0.161  Sum_probs=112.4

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc----------c
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ----------E   81 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~----------~   81 (221)
                      .+.+.+.+..++|+++|.+|+|||||+++|++..+...+.++.+.+........   ...+.+|||||.          +
T Consensus        15 ~~~~~~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~   91 (196)
T PRK00454         15 KLEQLPPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKE   91 (196)
T ss_pred             cHhhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHH
Confidence            355666678899999999999999999999997755566666665555443332   257999999994          2


Q ss_pred             cccccchhhccC---CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHHHh
Q psy2300          82 RYRTITTAYYRG---AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAESL  156 (221)
Q Consensus        82 ~~~~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~  156 (221)
                      .+..+...++..   .+++++|+|.+++...... .+...+..   .+.|+++++||+|+.+.....  .++........
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~i~~~l~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~  167 (196)
T PRK00454         92 KWQKLIEEYLRTRENLKGVVLLIDSRHPLKELDL-QMIEWLKE---YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFG  167 (196)
T ss_pred             HHHHHHHHHHHhCccceEEEEEEecCCCCCHHHH-HHHHHHHH---cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhc
Confidence            333334444444   4678889998775443321 12222322   378999999999986533221  12233333333


Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         157 GVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ...++++|+++|.|+++++++|.+.+.
T Consensus       168 ~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        168 DDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            578999999999999999999887654

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.89  E-value=3.4e-22  Score=165.95  Aligned_cols=154  Identities=22%  Similarity=0.218  Sum_probs=112.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc--------chh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI--------TTA   89 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~   89 (221)
                      ...++|+++|.+|+|||||+|+|++.... ....+..+.+.....+..++  ..+.+|||||...+...        ...
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~~~~~  278 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIEKSFK  278 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHHHHHH
Confidence            35689999999999999999999987531 22233333344444455543  56789999997544322        234


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      ++..+|++++|+|++++.+++..  |+..+..   .+.|+++|+||+|+...   .   ...+....+.+++++|+++ .
T Consensus       279 ~~~~aD~il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~---~---~~~~~~~~~~~~~~vSak~-~  346 (442)
T TIGR00450       279 AIKQADLVIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN---S---LEFFVSSKVLNSSNLSAKQ-L  346 (442)
T ss_pred             HHhhCCEEEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc---c---hhhhhhhcCCceEEEEEec-C
Confidence            67899999999999998877665  5555543   37899999999999543   1   2234555677899999998 6


Q ss_pred             CHHHHHHHHHHHHHHhh
Q psy2300         170 NVKGVFERLVDIICDKM  186 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~  186 (221)
                      |++++|+.+.+.+.+..
T Consensus       347 gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       347 KIKALVDLLTQKINAFY  363 (442)
T ss_pred             CHHHHHHHHHHHHHHHh
Confidence            99999999999887765

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>KOG3883|consensus

Probab=99.89  E-value=1.2e-21  Score=135.05  Aligned_cols=165  Identities=22%  Similarity=0.329  Sum_probs=134.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC--CccccceeeeeEEEEEE-eCCeEEEEEEEeCCCcccc-cccchhhccCCc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT--SAFVSTVGIDFKVKTVF-RHDKRVKLQIWDTAGQERY-RTITTAYYRGAM   95 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~i~D~~g~~~~-~~~~~~~~~~~d   95 (221)
                      ..-||+|+|..++|||+++.+++.+...  .+..+|+.-. +...+. -++..-.+.++||.|-... ..+-..++.-+|
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDi-Y~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aD   86 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDI-YVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFAD   86 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhh-eeEeeecCCChhheEEEeecccccCchhhhhHhHhccCc
Confidence            3579999999999999999998766532  2455665533 333333 3444568999999996555 677888999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++++|||..|++||..+.-+-..|.++. ...+|++|++||.|+.+.+.+..+.+..|++...+..+++++.+...+-+.
T Consensus        87 afVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   87 AFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             eEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhH
Confidence            9999999999999998877666676555 468999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2300         175 FERLVDIICDK  185 (221)
Q Consensus       175 ~~~i~~~~~~~  185 (221)
                      |.++...+.+.
T Consensus       167 f~~l~~rl~~p  177 (198)
T KOG3883|consen  167 FTYLASRLHQP  177 (198)
T ss_pred             HHHHHHhccCC
Confidence            99888776543

>cd01889 SelB_euk SelB subfamily

Probab=99.89  E-value=2.2e-22  Score=150.63  Aligned_cols=158  Identities=17%  Similarity=0.126  Sum_probs=101.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC----CCCCc---cc--cceeeeeEEEEEE----------eCCeEEEEEEEeCCCccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD----SFTSA---FV--STVGIDFKVKTVF----------RHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~----~~~~~---~~--~~~~~~~~~~~~~----------~~~~~~~~~i~D~~g~~~   82 (221)
                      ++|+++|++++|||||+++|+..    .+...   ..  .|.........+.          .....+.+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999973    11111   11  2222222222222          112357899999999865


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHHHHHH------
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGKHLAE------  154 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~------  154 (221)
                      +..........+|++++|+|+.+.........+. .. ..  .+.|+++++||+|+......  ..++......      
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~-~~-~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~  156 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV-IG-EI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKT  156 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH-HH-HH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            5433334456789999999998754333332222 11 22  26799999999998643221  1222222111      


Q ss_pred             -HhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         155 -SLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       155 -~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                       ..+++++++||++|.|+++++++|.+.+.
T Consensus       157 ~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         157 RFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence             13568999999999999999999988765

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=2.8e-22  Score=168.83  Aligned_cols=155  Identities=19%  Similarity=0.206  Sum_probs=108.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--------ccccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--------YRTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   91 (221)
                      ...+|+|+|.+|||||||+++|++.... ...++.+++...........+..+.+|||||.+.        +...+..++
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~-~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~  115 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREA-VVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAM  115 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCcc-cccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHH
Confidence            4579999999999999999999987642 2334445544443333322335688999999652        233345578


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  170 (221)
                      ..+|++|+|+|+++..++.. ..+...+..   .+.|+++|+||+|+....   .+....+  ..++ ..+++||++|.|
T Consensus       116 ~~aD~il~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~g  186 (472)
T PRK03003        116 RTADAVLFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRG  186 (472)
T ss_pred             HhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCC
Confidence            89999999999998765543 234444443   379999999999985432   1222222  2333 457999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIICD  184 (221)
Q Consensus       171 i~~l~~~i~~~~~~  184 (221)
                      ++++|++|.+.+.+
T Consensus       187 i~eL~~~i~~~l~~  200 (472)
T PRK03003        187 VGDLLDAVLAALPE  200 (472)
T ss_pred             cHHHHHHHHhhccc
Confidence            99999999988754

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.89  E-value=2.5e-22  Score=138.90  Aligned_cols=114  Identities=33%  Similarity=0.570  Sum_probs=89.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC--CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFT--SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      ||+|+|..|+|||||+++|++..+.  ....+..+.++.............+.+||++|++.+...+..++..+|++++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999999875  12334445555555666677777799999999998888888889999999999


Q ss_pred             EECCChhhHHHHHHH---HHHHHhhCCCCCcEEEEEeCCC
Q psy2300         101 YDVTNEESFTSIQDW---ITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~---~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      ||++++.+++.+..+   +..+.... .+.|++||+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            999999999998665   44444432 5699999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.89  E-value=5.1e-22  Score=170.31  Aligned_cols=156  Identities=19%  Similarity=0.291  Sum_probs=116.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC-------CCCcccc------ceeeeeEEEEEEe-----CCeEEEEEEEeCCCccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS-------FTSAFVS------TVGIDFKVKTVFR-----HDKRVKLQIWDTAGQER   82 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~-------~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~i~D~~g~~~   82 (221)
                      .-+|+++|+.++|||||+++|+...       +...+..      ..++++....+.+     ++..+.+.||||||+..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            4579999999999999999998642       1122222      2355555444333     45568999999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC---e
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV---E  159 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~  159 (221)
                      |...+..++..+|++|+|+|+++..+......|...+.    .+.|+++|+||+|+.+...  .....++....++   .
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~~--~~~~~el~~~lg~~~~~  156 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSADP--ERVKKEIEEVIGLDASE  156 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccCH--HHHHHHHHHHhCCCcce
Confidence            98888899999999999999998776666666655443    3789999999999965321  1223344444554   4


Q ss_pred             EEEEecCCCCCHHHHHHHHHHHH
Q psy2300         160 FFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       160 ~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++++||++|.|++++|++|.+.+
T Consensus       157 vi~vSAktG~GI~~Lle~I~~~l  179 (595)
T TIGR01393       157 AILASAKTGIGIEEILEAIVKRV  179 (595)
T ss_pred             EEEeeccCCCCHHHHHHHHHHhC
Confidence            89999999999999999988765

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.89  E-value=4.1e-22  Score=148.48  Aligned_cols=156  Identities=21%  Similarity=0.174  Sum_probs=109.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccc--------------eeeeeEEEEEEeCCeEEEEEEEeCCCcccccccch
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVST--------------VGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITT   88 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   88 (221)
                      +|+|+|.+|+|||||+++|++..........              .+.+..............+.+||+||...+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            4899999999999999999988754432111              11222222222222346799999999988888888


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHHHHHHH-----------
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGKHLAES-----------  155 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~-----------  155 (221)
                      .++..+|++++|+|+.++...... .++..+..   .+.|+++++||+|+......  ..+........           
T Consensus        81 ~~~~~~d~~i~v~d~~~~~~~~~~-~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (189)
T cd00881          81 RGLSVSDGAILVVDANEGVQPQTR-EHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGT  156 (189)
T ss_pred             HHHHhcCEEEEEEECCCCCcHHHH-HHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhc
Confidence            889999999999999876544332 33344433   48999999999999652221  12223333332           


Q ss_pred             ---hCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         156 ---LGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       156 ---~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                         ...+++++||++|.|+++++++|.+.+
T Consensus       157 ~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         157 RNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             ccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence               246899999999999999999988875

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.89  E-value=2.2e-22  Score=145.87  Aligned_cols=142  Identities=20%  Similarity=0.239  Sum_probs=99.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----ccccchhhccCCcEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YRTITTAYYRGAMGFI   98 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~~~~~~~d~vi   98 (221)
                      +|+++|.+|+|||||++++.+...  ...++.+..+       ...    .+|||||...    +.......+..+|+++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~--~~~~~~~v~~-------~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il   69 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYT--LARKTQAVEF-------NDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLI   69 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCc--cCccceEEEE-------CCC----CcccCCccccCCHHHHHHHHHHHhcCCEEE
Confidence            799999999999999999886541  1112222111       111    2699999632    1111123468999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC--eEEEEecCCCCCHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV--EFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|+++..++.  ..|+..+.    .+.|+++++||+|+.+.   ..+....++...++  +++++||++|.|++++|+
T Consensus        70 ~v~d~~~~~s~~--~~~~~~~~----~~~~ii~v~nK~Dl~~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~  140 (158)
T PRK15467         70 YVHGANDPESRL--PAGLLDIG----VSKRQIAVISKTDMPDA---DVAATRKLLLETGFEEPIFELNSHDPQSVQQLVD  140 (158)
T ss_pred             EEEeCCCccccc--CHHHHhcc----CCCCeEEEEEccccCcc---cHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHH
Confidence            999999887652  23433331    36799999999999653   34556677777774  899999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      ++.+.+.+..
T Consensus       141 ~l~~~~~~~~  150 (158)
T PRK15467        141 YLASLTKQEE  150 (158)
T ss_pred             HHHHhchhhh
Confidence            9988775544

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.89  E-value=3.3e-22  Score=168.39  Aligned_cols=160  Identities=20%  Similarity=0.154  Sum_probs=109.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----------cccccc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----------RYRTIT-   87 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~~~~~-   87 (221)
                      ..++|+++|.+|+|||||+++|++..+. ....+..+.+.....+..++.  .+.+|||+|..          .+..+. 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHH
Confidence            4699999999999999999999988642 222333333333344445543  56799999952          222222 


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHH-HHHHhCCeEEEEe
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKH-LAESLGVEFFETS  164 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~-~~~~~~~~~~~~S  164 (221)
                      ..+++.+|++++|+|++++.++.+.. ++..+..   .+.|+++|+||+|+.+.....  ..+... +......+++++|
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~S  363 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNIS  363 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEE
Confidence            23578999999999999988877764 4444443   379999999999996432110  111111 1111236899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHh
Q psy2300         165 AKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~  185 (221)
                      |++|.|++++|+.+.+.+...
T Consensus       364 Ak~g~gv~~lf~~i~~~~~~~  384 (472)
T PRK03003        364 AKTGRAVDKLVPALETALESW  384 (472)
T ss_pred             CCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999998877544

>PRK11058 GTPase HflX; Provisional

Probab=99.89  E-value=9.4e-22  Score=162.49  Aligned_cols=159  Identities=18%  Similarity=0.158  Sum_probs=110.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc--cccch------hhcc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY--RTITT------AYYR   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--~~~~~------~~~~   92 (221)
                      ..+|+++|.+|||||||+|+|++..+.....+..+.+.....+...+. ..+.+|||+|....  ..++.      ..+.
T Consensus       197 ~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~  275 (426)
T PRK11058        197 VPTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETR  275 (426)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhh
Confidence            368999999999999999999987754333333333333444444432 25789999997321  12222      2368


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCe-EEEEecCCCCCH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVE-FFETSAKDNVNV  171 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi  171 (221)
                      .+|++++|+|++++.+++.+..|...+......+.|+++|+||+|+......   ...  ....+.+ ++++||++|.|+
T Consensus       276 ~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~~---~~~--~~~~~~~~~v~ISAktG~GI  350 (426)
T PRK11058        276 QATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFEP---RID--RDEENKPIRVWLSAQTGAGI  350 (426)
T ss_pred             cCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchhH---HHH--HHhcCCCceEEEeCCCCCCH
Confidence            8999999999999988888766666555544457999999999998543111   111  1123444 588999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2300         172 KGVFERLVDIICDK  185 (221)
Q Consensus       172 ~~l~~~i~~~~~~~  185 (221)
                      ++++++|.+.+...
T Consensus       351 deL~e~I~~~l~~~  364 (426)
T PRK11058        351 PLLFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHHHhhhc
Confidence            99999999987543

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.88  E-value=3.7e-22  Score=166.57  Aligned_cols=149  Identities=20%  Similarity=0.197  Sum_probs=108.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc--------chhh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI--------TTAY   90 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   90 (221)
                      ..++|+++|.+|+|||||+|+|++.... ....+..+.++....+..+  +..+.+|||+|...+...        ...+
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~--g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~  291 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLD--GIPLRLIDTAGIRETDDEVEKIGIERSREA  291 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEEC--CeEEEEEeCCCCCCCccHHHHHHHHHHHHH
Confidence            3489999999999999999999987631 2222322333333444444  357899999997644321        2235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      +..+|++++|+|++++.+++....|..      ..+.|+++|+||+|+.......        ...+.+++++||++|.|
T Consensus       292 ~~~aD~il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~G  357 (449)
T PRK05291        292 IEEADLVLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEG  357 (449)
T ss_pred             HHhCCEEEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCC
Confidence            788999999999999887776544433      2478999999999996543221        23356899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIICD  184 (221)
Q Consensus       171 i~~l~~~i~~~~~~  184 (221)
                      +++++++|.+.+..
T Consensus       358 I~~L~~~L~~~l~~  371 (449)
T PRK05291        358 IDELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.88  E-value=6.6e-22  Score=149.24  Aligned_cols=159  Identities=16%  Similarity=0.155  Sum_probs=100.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEE--EEEeC---------------------------C----
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVK--TVFRH---------------------------D----   67 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~--~~~~~---------------------------~----   67 (221)
                      ++|+++|+.|+|||||+..+.+..... ......+.+....  .+...                           +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            479999999999999999997652111 0111111111111  10000                           0    


Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--C
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--S  145 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~  145 (221)
                      ...++.||||||++.+...+...+..+|++++|+|++++.........+..+...  ...|+++++||+|+.+....  .
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~  158 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALEN  158 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHH
Confidence            1167899999999988777777788899999999998742111111222222222  23579999999999653221  1


Q ss_pred             HHHHHHHHHHh---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         146 FERGKHLAESL---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       146 ~~~~~~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .++...+....   +.+++++||++|+|+++++++|.+.+
T Consensus       159 ~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         159 YEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            12333333332   56899999999999999999987643

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.88  E-value=2.3e-21  Score=165.54  Aligned_cols=154  Identities=18%  Similarity=0.199  Sum_probs=110.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      .+..+|+++|++++|||||+++|....+.....+.++.+.....+..++. ..+.||||||++.|..++...+..+|+++
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaI  163 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVV  163 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEE
Confidence            35689999999999999999999988765554444444444444444332 27899999999999998888899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC---------CeEEEEecCCCC
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG---------VEFFETSAKDNV  169 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~  169 (221)
                      +|+|+++....+.... +.....   .+.|+++++||+|+.+.   ..++....+...+         .+++++||++|+
T Consensus       164 LVVda~dgv~~qT~e~-i~~~~~---~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGe  236 (587)
T TIGR00487       164 LVVAADDGVMPQTIEA-ISHAKA---ANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGD  236 (587)
T ss_pred             EEEECCCCCCHhHHHH-HHHHHH---cCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCC
Confidence            9999987432222221 222222   37999999999999653   2233333333222         479999999999


Q ss_pred             CHHHHHHHHHH
Q psy2300         170 NVKGVFERLVD  180 (221)
Q Consensus       170 gi~~l~~~i~~  180 (221)
                      |+++++++|..
T Consensus       237 GI~eLl~~I~~  247 (587)
T TIGR00487       237 GIDELLDMILL  247 (587)
T ss_pred             ChHHHHHhhhh
Confidence            99999999864

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.88  E-value=9.8e-22  Score=145.58  Aligned_cols=152  Identities=14%  Similarity=0.175  Sum_probs=103.5

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----------cc
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----------RY   83 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------~~   83 (221)
                      .+.+.+..++|+++|.+|+|||||++++++..+...+.++.+.+........++   .+.+|||||..          .+
T Consensus        11 ~~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~   87 (179)
T TIGR03598        11 KQLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKW   87 (179)
T ss_pred             hhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHH
Confidence            455667889999999999999999999998865455556666555544443332   58899999942          23


Q ss_pred             cccchhhcc---CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--cCHHHHHHHHHHhC-
Q psy2300          84 RTITTAYYR---GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--ISFERGKHLAESLG-  157 (221)
Q Consensus        84 ~~~~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~-  157 (221)
                      ..+...+++   .++++++|+|++++.+..+. .++..+..   .+.|+++++||+|+.....  ...++.+..+...+ 
T Consensus        88 ~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~  163 (179)
T TIGR03598        88 QKLIEEYLEKRENLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDAD  163 (179)
T ss_pred             HHHHHHHHHhChhhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccC
Confidence            333334444   35799999999876544443 23333333   3799999999999864321  12334444454443 


Q ss_pred             -CeEEEEecCCCCCHH
Q psy2300         158 -VEFFETSAKDNVNVK  172 (221)
Q Consensus       158 -~~~~~~Sa~~~~gi~  172 (221)
                       ..++++||++|+|++
T Consensus       164 ~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       164 DPSVQLFSSLKKTGID  179 (179)
T ss_pred             CCceEEEECCCCCCCC
Confidence             479999999999974

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.88  E-value=2.9e-21  Score=161.47  Aligned_cols=161  Identities=19%  Similarity=0.150  Sum_probs=108.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc-----------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT-----------   87 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----------   87 (221)
                      ...++|+++|.+|+|||||+++|++..... ..+..+++.......+...+..+.+|||||........           
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~-~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVI-VSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeee-cCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHH
Confidence            356899999999999999999999875321 12223333333322222223478999999965443221           


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-H----hCCeEEE
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAE-S----LGVEFFE  162 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~----~~~~~~~  162 (221)
                      ..+++.+|++++|+|++++.+..+.. ++..+..   .+.|+++|+||+|+... ....++...... .    ..+++++
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~vi~  323 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVKD-EKTREEFKKELRRKLPFLDFAPIVF  323 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCCC-HHHHHHHHHHHHHhcccCCCCceEE
Confidence            23578999999999999887766553 3333333   37999999999999621 111222222221 1    1368999


Q ss_pred             EecCCCCCHHHHHHHHHHHHHHh
Q psy2300         163 TSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      +||++|.|++++|+++.+.+...
T Consensus       324 ~SA~~g~~v~~l~~~i~~~~~~~  346 (429)
T TIGR03594       324 ISALTGQGVDKLLDAIDEVYENA  346 (429)
T ss_pred             EeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999999876544

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd01895 EngA2 EngA2 subfamily

Probab=99.87  E-value=6e-21  Score=140.02  Aligned_cols=155  Identities=19%  Similarity=0.175  Sum_probs=101.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-----------cch
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-----------ITT   88 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   88 (221)
                      .++|+++|.+|+|||||+++|++..... ...+..........+..++  ..+.+||+||......           ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYDG--KKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEECC--eeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            4789999999999999999999876321 2222222222222333333  4578999999643311           012


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-HHh----CCeEEEE
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-ESL----GVEFFET  163 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-~~~----~~~~~~~  163 (221)
                      ..+..+|++++|+|+.++.+..... +...+..   .+.|+++++||+|+.+......+...... ...    ..+++++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~-~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  155 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLR-IAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFI  155 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHH-HHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEE
Confidence            2467899999999999887655432 3333332   37899999999999655322222222222 222    3589999


Q ss_pred             ecCCCCCHHHHHHHHHHH
Q psy2300         164 SAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~  181 (221)
                      ||+++.|++++++++.+.
T Consensus       156 Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         156 SALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             eccCCCCHHHHHHHHHHh
Confidence            999999999999988764

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.87  E-value=4e-21  Score=164.67  Aligned_cols=154  Identities=19%  Similarity=0.211  Sum_probs=112.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC---CCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD---SFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +.|+++|++++|||||+++|++.   .++.+....++.+.....+..++  ..+.+||+||++.|...+...+.++|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            46899999999999999999963   33334444444444444444443  78999999999999888888899999999


Q ss_pred             EEEECCC---hhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCccc--CHHHHHHHHHHh----CCeEEEEecCCC
Q psy2300          99 LMYDVTN---EESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVI--SFERGKHLAESL----GVEFFETSAKDN  168 (221)
Q Consensus        99 ~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~~Sa~~~  168 (221)
                      +|+|+++   +++++++.    .+...   +.| ++|++||+|+.+....  ..++...+....    +++++++|+++|
T Consensus        79 LVVDa~~G~~~qT~ehl~----il~~l---gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG  151 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA----VLDLL---GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTG  151 (581)
T ss_pred             EEEECCCCCcHHHHHHHH----HHHHc---CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCC
Confidence            9999998   44444432    23222   677 9999999999654322  123444555444    468999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDIICD  184 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~  184 (221)
                      .|+++++++|.+.+..
T Consensus       152 ~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       152 QGIGELKKELKNLLES  167 (581)
T ss_pred             CCchhHHHHHHHHHHh
Confidence            9999999988776544

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=3.2e-21  Score=157.70  Aligned_cols=161  Identities=18%  Similarity=0.169  Sum_probs=112.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe-EEEEEEEeCCCcccc-------cccchhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQERY-------RTITTAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~-------~~~~~~~~~~   93 (221)
                      ..|+|||.||||||||+|+|++...  ...+.+.+|.......+... ...+.|+||||.-.-       ......++..
T Consensus       160 adValVG~PNaGKSTLln~Lt~~k~--~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~r  237 (390)
T PRK12298        160 ADVGLLGLPNAGKSTFIRAVSAAKP--KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLER  237 (390)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhCCcc--cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHh
Confidence            3799999999999999999998763  33333333333333322212 245899999995321       1112235788


Q ss_pred             CcEEEEEEECC---ChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEecC
Q psy2300          94 AMGFILMYDVT---NEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSAK  166 (221)
Q Consensus        94 ~d~vi~v~d~~---~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~  166 (221)
                      +|++++|+|++   +.+.++....|+..+..+.  ..+.|++||+||+|+.....+ .+....+....+  .+++++||+
T Consensus       238 advlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~  316 (390)
T PRK12298        238 CRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAA  316 (390)
T ss_pred             CCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECC
Confidence            99999999988   4566777777888776653  236899999999999654332 233344444434  378999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2300         167 DNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++.|+++++++|.+.+.+.
T Consensus       317 tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        317 SGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             CCcCHHHHHHHHHHHhhhC
Confidence            9999999999999887653

>cd04163 Era Era subfamily

Probab=99.87  E-value=6.2e-21  Score=138.88  Aligned_cols=156  Identities=19%  Similarity=0.161  Sum_probs=102.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc--------cchhhcc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT--------ITTAYYR   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~--------~~~~~~~   92 (221)
                      ..+|+++|.+|+|||||++++.+..+.... .....+..............+.+|||||......        .....+.
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   81 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVS-PKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALK   81 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEecc-CCCCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHH
Confidence            478999999999999999999987643221 1111222222222233346789999999653322        2334578


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCCH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNV  171 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi  171 (221)
                      .+|++++|+|++++... ....+...+...   +.|+++|+||+|+........+....+..... .+++++|++++.|+
T Consensus        82 ~~d~i~~v~d~~~~~~~-~~~~~~~~~~~~---~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~  157 (168)
T cd04163          82 DVDLVLFVVDASEPIGE-GDEFILELLKKS---KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENV  157 (168)
T ss_pred             hCCEEEEEEECCCccCc-hHHHHHHHHHHh---CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCCh
Confidence            89999999999987221 122233334333   68999999999996433222233334433332 58999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         172 KGVFERLVDI  181 (221)
Q Consensus       172 ~~l~~~i~~~  181 (221)
                      ++++++|.+.
T Consensus       158 ~~l~~~l~~~  167 (168)
T cd04163         158 DELLEEIVKY  167 (168)
T ss_pred             HHHHHHHHhh
Confidence            9999998764

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>KOG0096|consensus

Probab=99.87  E-value=4.1e-22  Score=142.09  Aligned_cols=186  Identities=24%  Similarity=0.436  Sum_probs=162.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++++++|..|.||||++++.+.+.|...+.++.+..........+.+.+++..|||.|++.+..+...++-++.+.++
T Consensus         9 ~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAii   88 (216)
T KOG0096|consen    9 LTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAII   88 (216)
T ss_pred             ceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEE
Confidence            57999999999999999999999999999999999999988888776667999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +||+..+..+.++..|-..+.+.+ .+.|+++++||.|..+..  .......+.+..++.|+++|++.+-|+..-|-|+.
T Consensus        89 mFdVtsr~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~La  165 (216)
T KOG0096|consen   89 MFDVTSRFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLA  165 (216)
T ss_pred             EeeeeehhhhhcchHHHHHHHHHh-cCCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHHh
Confidence            999999999999999988887665 579999999999985543  12233445566788999999999999999999999


Q ss_pred             HHHHHhhccccCCCCCCCCCCCCCccccC
Q psy2300         180 DIICDKMSESLDSDPNLVAGPKGTRLTEQ  208 (221)
Q Consensus       180 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  208 (221)
                      +.+...-..++..++...++....+...+
T Consensus       166 rKl~G~p~Lefva~paLaPpev~~d~~~~  194 (216)
T KOG0096|consen  166 RKLTGDPSLEFVAMPALAPPEVIMDYWLQ  194 (216)
T ss_pred             hhhcCCCCeEEEeccccCCCeeeccchhh
Confidence            99999888888888888887776665544

>PRK00089 era GTPase Era; Reviewed

Probab=99.87  E-value=4.5e-21  Score=152.54  Aligned_cols=159  Identities=16%  Similarity=0.150  Sum_probs=104.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc--------ccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR--------TITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~   91 (221)
                      ..-.|+|+|.+|||||||+|+|++..+... .+...++.............++.+|||||.....        ......+
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~v-s~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~   82 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIV-SPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSL   82 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeec-CCCCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHH
Confidence            345699999999999999999998875322 2222222222222122233689999999954321        2233457


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  170 (221)
                      ..+|++++|+|+++.... .....+..+..   .+.|+++|+||+|+.............+....+ .+++++||+++.|
T Consensus        83 ~~~D~il~vvd~~~~~~~-~~~~i~~~l~~---~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~g  158 (292)
T PRK00089         83 KDVDLVLFVVDADEKIGP-GDEFILEKLKK---VKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDN  158 (292)
T ss_pred             hcCCEEEEEEeCCCCCCh-hHHHHHHHHhh---cCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCC
Confidence            889999999999883221 12223333332   368999999999996432222233444444444 5799999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIIC  183 (221)
Q Consensus       171 i~~l~~~i~~~~~  183 (221)
                      +++++++|.+.+.
T Consensus       159 v~~L~~~L~~~l~  171 (292)
T PRK00089        159 VDELLDVIAKYLP  171 (292)
T ss_pred             HHHHHHHHHHhCC
Confidence            9999999888763

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.86  E-value=7.8e-21  Score=164.73  Aligned_cols=157  Identities=19%  Similarity=0.210  Sum_probs=111.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--eEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+...|+|+|+.++|||||+++|....+........+.+  .+...+..++....+.||||||++.|..++..++..+|+
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDi  321 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDI  321 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCE
Confidence            466899999999999999999999877644333323222  222333333445789999999999999999889999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHH-------HHHhC--CeEEEEecCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHL-------AESLG--VEFFETSAKD  167 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-------~~~~~--~~~~~~Sa~~  167 (221)
                      +|+|+|+++....+....+ ..+..   .+.|++|++||+|+....   .+.....       ...++  ++++++||++
T Consensus       322 aILVVDA~dGv~~QT~E~I-~~~k~---~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAkt  394 (742)
T CHL00189        322 AILIIAADDGVKPQTIEAI-NYIQA---ANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQ  394 (742)
T ss_pred             EEEEEECcCCCChhhHHHH-HHHHh---cCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCC
Confidence            9999999874322222222 22222   479999999999996532   2222221       12223  6899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDII  182 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~  182 (221)
                      |.|+++++++|....
T Consensus       395 G~GIdeLle~I~~l~  409 (742)
T CHL00189        395 GTNIDKLLETILLLA  409 (742)
T ss_pred             CCCHHHHHHhhhhhh
Confidence            999999999987753

>KOG1673|consensus

Probab=99.86  E-value=4e-21  Score=132.76  Aligned_cols=164  Identities=24%  Similarity=0.505  Sum_probs=140.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      -.+||.++|++..|||||+-++.++.+..++..+.|..+..+++.+.+..+.+.+||.+|++++..+......++-+++|
T Consensus        19 Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlF   98 (205)
T KOG1673|consen   19 VSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILF   98 (205)
T ss_pred             eEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEE
Confidence            47999999999999999999999999988888999999999999999999999999999999999988888899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC----C-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED----E-RVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~----~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +||++.+..+..+..|+.+-..... ..--++|++|.|+--    . .+.-...++.+++..+.++|+||+.+..|+..+
T Consensus        99 mFDLt~r~TLnSi~~WY~QAr~~Nk-tAiPilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv~KI  177 (205)
T KOG1673|consen   99 MFDLTRRSTLNSIKEWYRQARGLNK-TAIPILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINVQKI  177 (205)
T ss_pred             EEecCchHHHHHHHHHHHHHhccCC-ccceEEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccHHHH
Confidence            9999999999999999999877653 333467899999621    1 111123466778888999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         175 FERLVDIICD  184 (221)
Q Consensus       175 ~~~i~~~~~~  184 (221)
                      |..+..++..
T Consensus       178 FK~vlAklFn  187 (205)
T KOG1673|consen  178 FKIVLAKLFN  187 (205)
T ss_pred             HHHHHHHHhC
Confidence            9988777654

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.86  E-value=2.1e-20  Score=163.39  Aligned_cols=154  Identities=19%  Similarity=0.196  Sum_probs=109.4

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ..+...|+|+|+.++|||||+++|....+.......++.+.....+..+  +..++||||||++.|..++...+..+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            3467889999999999999999998877654433333333333334333  36799999999999999998889999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH-------HHHHhC--CeEEEEecCCC
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH-------LAESLG--VEFFETSAKDN  168 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-------~~~~~~--~~~~~~Sa~~~  168 (221)
                      |+|+|+++...-+....| .....   .+.|++|++||+|+.+..   .+....       +...++  ++++++||++|
T Consensus       365 ILVVdAddGv~~qT~e~i-~~a~~---~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG  437 (787)
T PRK05306        365 VLVVAADDGVMPQTIEAI-NHAKA---AGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAKTG  437 (787)
T ss_pred             EEEEECCCCCCHhHHHHH-HHHHh---cCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCCCC
Confidence            999999874322222222 22222   479999999999996532   122211       122233  68999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVD  180 (221)
Q Consensus       169 ~gi~~l~~~i~~  180 (221)
                      .|+++++++|..
T Consensus       438 ~GI~eLle~I~~  449 (787)
T PRK05306        438 EGIDELLEAILL  449 (787)
T ss_pred             CCchHHHHhhhh
Confidence            999999999875

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.86  E-value=3e-21  Score=144.06  Aligned_cols=159  Identities=21%  Similarity=0.241  Sum_probs=106.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCc----------------cccceeeee--EEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSA----------------FVSTVGIDF--KVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~----------------~~~~~~~~~--~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      ..++|+++|+.++|||||+.+|+...-...                .....+.+.  ....+........++++|+||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            468999999999999999999985431100                001112222  23333212345789999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-CHHHHH-HHHHHh---
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-SFERGK-HLAESL---  156 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~-~~~~~~---  156 (221)
                      .|.......+..+|++|+|+|+.++.... ....+..+...   +.|++|++||+|+...+.. ..++.. .+.+..   
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~-~~~~l~~~~~~---~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~  157 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQ-TEEHLKILREL---GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGEN  157 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHH-HHHHHHHHHHT---T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTST
T ss_pred             ceeecccceecccccceeeeecccccccc-ccccccccccc---ccceEEeeeeccchhhhHHHHHHHHHHHhccccccC
Confidence            88887888899999999999998764322 33344444444   7899999999999621110 011111 232333   


Q ss_pred             ---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         157 ---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       157 ---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                         .++++++||.+|.|+++|++.|.+.+
T Consensus       158 ~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  158 GEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             TTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             ccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence               24799999999999999999988764

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>KOG0074|consensus

Probab=99.86  E-value=2.6e-21  Score=131.63  Aligned_cols=156  Identities=22%  Similarity=0.330  Sum_probs=121.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|..++|||||++.|..... ....||.|  +..+++..+ +.+++++||++|+...+..|..|+.+.|++|
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~-~hltpT~G--Fn~k~v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~lI   90 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDP-RHLTPTNG--FNTKKVEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGLI   90 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCCh-hhccccCC--cceEEEeec-CcEEEEEEecCCccccchhhhhhhhccceEE
Confidence            5789999999999999999999998773 44566666  555555544 4589999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHH-HHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~-l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~  172 (221)
                      ||+|.+|...|+++...+.. +...+....|+++..||.|+..+..+  ++.-.-+     +...+.+-+||+.+++|+.
T Consensus        91 yVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~--eeia~klnl~~lrdRswhIq~csals~eg~~  168 (185)
T KOG0074|consen   91 YVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKV--EEIALKLNLAGLRDRSWHIQECSALSLEGST  168 (185)
T ss_pred             EEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcch--HHHHHhcchhhhhhceEEeeeCccccccCcc
Confidence            99999999999988875444 45555678999999999998543322  2111111     1112568899999999999


Q ss_pred             HHHHHHHH
Q psy2300         173 GVFERLVD  180 (221)
Q Consensus       173 ~l~~~i~~  180 (221)
                      +-.+|+..
T Consensus       169 dg~~wv~s  176 (185)
T KOG0074|consen  169 DGSDWVQS  176 (185)
T ss_pred             Ccchhhhc
Confidence            98888764

>KOG0076|consensus

Probab=99.85  E-value=1.6e-21  Score=137.21  Aligned_cols=159  Identities=27%  Similarity=0.391  Sum_probs=121.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC---C----CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS---F----TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~---~----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      .+.|+++|..++|||||+.++....   +    +....+|.+  ....++.+.  ...+.|||.+|++..+++|..|+..
T Consensus        17 ~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvg--Lnig~i~v~--~~~l~fwdlgGQe~lrSlw~~yY~~   92 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVG--LNIGTIEVC--NAPLSFWDLGGQESLRSLWKKYYWL   92 (197)
T ss_pred             hhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccc--eeecceeec--cceeEEEEcCChHHHHHHHHHHHHH
Confidence            4789999999999999998875432   1    122333334  333344443  4679999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHH-HhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH---Hh---CCeEEEEecC
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAE---SL---GVEFFETSAK  166 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l-~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~---~~---~~~~~~~Sa~  166 (221)
                      ++++++++|++|++.|+.....+..+ ......+.|+++.+||.|+++...  ..++.....   ..   ..++.++||.
T Consensus        93 ~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~--~~El~~~~~~~e~~~~rd~~~~pvSal  170 (197)
T KOG0076|consen   93 AHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAME--AAELDGVFGLAELIPRRDNPFQPVSAL  170 (197)
T ss_pred             hceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhh--HHHHHHHhhhhhhcCCccCccccchhh
Confidence            99999999999999998887755554 334457999999999999976532  333333332   22   3678999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2300         167 DNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~~  185 (221)
                      +|+||++-.+|+...+.++
T Consensus       171 ~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  171 TGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hcccHHHHHHHHHHHHhhc
Confidence            9999999999999988776

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.85  E-value=2.6e-20  Score=159.95  Aligned_cols=158  Identities=18%  Similarity=0.271  Sum_probs=113.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC--CC-----Ccc------ccceeeeeEEEEEEe-----CCeEEEEEEEeCCCcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS--FT-----SAF------VSTVGIDFKVKTVFR-----HDKRVKLQIWDTAGQE   81 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~--~~-----~~~------~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~g~~   81 (221)
                      +.-+|+++|+.++|||||+.+|+...  +.     ..+      ..+.+++.....+.+     ++..+.+.+|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            45689999999999999999998632  10     111      122344444333322     4456899999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC---
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV---  158 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---  158 (221)
                      .+...+..++..+|++|+|+|++++........|.....    .+.|+++|+||+|+.+...  ......+....++   
T Consensus        86 dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a~~--~~v~~ei~~~lg~~~~  159 (600)
T PRK05433         86 DFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAADP--ERVKQEIEDVIGIDAS  159 (600)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCcccH--HHHHHHHHHHhCCCcc
Confidence            998888889999999999999998765555555544332    3789999999999865321  1122333344454   


Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         159 EFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       159 ~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .++++||++|.|+++++++|.+.+.
T Consensus       160 ~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        160 DAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             eEEEEecCCCCCHHHHHHHHHHhCc
Confidence            3899999999999999999987653

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.85  E-value=3.8e-20  Score=162.37  Aligned_cols=153  Identities=17%  Similarity=0.156  Sum_probs=116.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc----------chhh
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI----------TTAY   90 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----------~~~~   90 (221)
                      .++|+++|++|||||||+|++++...  ......+++...+...+...+..+.+||+||...+...          ...+
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~--~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~   80 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ--RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC--ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHH
Confidence            47899999999999999999998764  34556777777776666666778999999997655321          1223


Q ss_pred             c--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          91 Y--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        91 ~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      +  ..+|++++|+|+++.+..  + .+...+.+.   +.|+++++||+|+.+.+.+. .+.+.+.+..+++++++|+++|
T Consensus        81 l~~~~aD~vI~VvDat~ler~--l-~l~~ql~e~---giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g  153 (772)
T PRK09554         81 ILSGDADLLINVVDASNLERN--L-YLTLQLLEL---GIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRG  153 (772)
T ss_pred             HhccCCCEEEEEecCCcchhh--H-HHHHHHHHc---CCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecC
Confidence            2  479999999999885432  2 233444443   79999999999986554443 4566777888999999999999


Q ss_pred             CCHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDII  182 (221)
Q Consensus       169 ~gi~~l~~~i~~~~  182 (221)
                      +|++++++.+.+..
T Consensus       154 ~GIdeL~~~I~~~~  167 (772)
T PRK09554        154 RGIEALKLAIDRHQ  167 (772)
T ss_pred             CCHHHHHHHHHHhh
Confidence            99999999887754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.85  E-value=1.3e-20  Score=157.56  Aligned_cols=152  Identities=19%  Similarity=0.220  Sum_probs=105.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc--------ccccccchhhccCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ--------ERYRTITTAYYRGA   94 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~--------~~~~~~~~~~~~~~   94 (221)
                      +|+++|.+|+|||||+|+|++... .......+++...........+..+.+|||||.        +.+......++..+
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~-~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~a   79 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRD-AIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEA   79 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCc-ceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhC
Confidence            589999999999999999998763 222334444443333332223356999999995        23344455678899


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKG  173 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~  173 (221)
                      |++++|+|+.++...... .+...+.+.   +.|+++|+||+|+.+....    ..+ ....++ .++++||++|.|+++
T Consensus        80 d~vl~vvD~~~~~~~~d~-~i~~~l~~~---~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~~  150 (429)
T TIGR03594        80 DVILFVVDGREGLTPEDE-EIAKWLRKS---GKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIGD  150 (429)
T ss_pred             CEEEEEEeCCCCCCHHHH-HHHHHHHHh---CCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChHH
Confidence            999999999875433321 233333332   7999999999998654321    112 234566 799999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         174 VFERLVDIICD  184 (221)
Q Consensus       174 l~~~i~~~~~~  184 (221)
                      +++++.+.+.+
T Consensus       151 ll~~i~~~l~~  161 (429)
T TIGR03594       151 LLDAILELLPE  161 (429)
T ss_pred             HHHHHHHhcCc
Confidence            99998877643

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.85  E-value=6.1e-20  Score=138.41  Aligned_cols=118  Identities=18%  Similarity=0.317  Sum_probs=87.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC-cEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA-MGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~-d~vi~v~  101 (221)
                      +|+++|+++||||+|+++|....+...+.+ +.................+.+||+||+..+...+..+++.+ +++|||+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s-~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~Vv   80 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTS-IEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVV   80 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCc-EeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEE
Confidence            689999999999999999999876554333 22222222222123456799999999999988888889998 9999999


Q ss_pred             ECCCh-hhHHHHHHHHHHHHhh---CCCCCcEEEEEeCCCCCCC
Q psy2300         102 DVTNE-ESFTSIQDWITQIKTY---SWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus       102 d~~~~-~s~~~~~~~~~~l~~~---~~~~~p~ivv~nK~Dl~~~  141 (221)
                      |+.+. .++..+..|+..+...   ...+.|+++++||+|+..+
T Consensus        81 D~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          81 DSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             ECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            99987 6777776666554322   1258999999999998543

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>COG1159 Era GTPase [General function prediction only]

Probab=99.85  E-value=2.2e-20  Score=143.38  Aligned_cols=159  Identities=18%  Similarity=0.138  Sum_probs=107.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc--------cccccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE--------RYRTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~   91 (221)
                      +.--|+++|.||+|||||+|++++.+..- ..+-..+|+.....-+.....++.|+||||.-        .+.......+
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~KisI-vS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl   83 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKISI-VSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSAL   83 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceEe-ecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHh
Confidence            45679999999999999999999998532 33333444554444343456789999999932        2223344567


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  170 (221)
                      ..+|+++||+|+++.-.- .....++.+..   .+.|+++++||+|.......-......+..... ..++++||++|.|
T Consensus        84 ~dvDlilfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n  159 (298)
T COG1159          84 KDVDLILFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDN  159 (298)
T ss_pred             ccCcEEEEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCC
Confidence            899999999999874222 11223344443   368999999999986654421122222222223 3799999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIIC  183 (221)
Q Consensus       171 i~~l~~~i~~~~~  183 (221)
                      ++.+.+.+...+-
T Consensus       160 ~~~L~~~i~~~Lp  172 (298)
T COG1159         160 VDTLLEIIKEYLP  172 (298)
T ss_pred             HHHHHHHHHHhCC
Confidence            9999998877764

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.85  E-value=5.7e-20  Score=153.91  Aligned_cols=159  Identities=21%  Similarity=0.177  Sum_probs=107.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc-----------ch
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI-----------TT   88 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------~~   88 (221)
                      ..++|+++|.+|+|||||+++|++.... ...+..+++.......+...+..+.+|||||.......           ..
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~-~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~  250 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERV-IVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTL  250 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHH
Confidence            5799999999999999999999976521 11223344444443333223456889999995432211           12


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH-HHHHH----hCCeEEEE
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK-HLAES----LGVEFFET  163 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~~~  163 (221)
                      .++..+|++++|+|++++.+..+.. +...+..   .+.|+++++||+|+.+...  .++.. .....    ..++++++
T Consensus       251 ~~~~~ad~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~--~~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        251 KAIERADVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT--MEEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHHCCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH--HHHHHHHHHHhcccccCCCEEEE
Confidence            3578899999999999887665543 3333333   3799999999999864321  11111 11111    23689999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHh
Q psy2300         164 SAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ||++|.|++++++.+.+...+.
T Consensus       325 SA~~~~gv~~l~~~i~~~~~~~  346 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYENA  346 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999988866543

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.84  E-value=3.4e-20  Score=155.30  Aligned_cols=147  Identities=21%  Similarity=0.237  Sum_probs=100.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--eEEEEEEeCCeEEEEEEEeCCCccc--------ccccchhhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRHDKRVKLQIWDTAGQER--------YRTITTAYY   91 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   91 (221)
                      ++|+++|.+|+|||||+++|.+.... ......+.+  ........++  ..+.+|||||.+.        +......++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~-~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~   78 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDA-IVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAI   78 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHH
Confidence            58999999999999999999987632 122233333  3333344443  6799999999875        222344567


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  170 (221)
                      ..+|++|+|+|+.++.+..+. .....+...   +.|+++|+||+|+.+..    ....++ ...++ .++++||++|.|
T Consensus        79 ~~ad~il~vvd~~~~~~~~~~-~~~~~l~~~---~~piilv~NK~D~~~~~----~~~~~~-~~lg~~~~~~iSa~~g~g  149 (435)
T PRK00093         79 EEADVILFVVDGRAGLTPADE-EIAKILRKS---NKPVILVVNKVDGPDEE----ADAYEF-YSLGLGEPYPISAEHGRG  149 (435)
T ss_pred             HhCCEEEEEEECCCCCCHHHH-HHHHHHHHc---CCcEEEEEECccCccch----hhHHHH-HhcCCCCCEEEEeeCCCC
Confidence            899999999999875433221 122222232   79999999999975421    222222 34455 489999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         171 VKGVFERLVD  180 (221)
Q Consensus       171 i~~l~~~i~~  180 (221)
                      ++++++++..
T Consensus       150 v~~l~~~I~~  159 (435)
T PRK00093        150 IGDLLDAILE  159 (435)
T ss_pred             HHHHHHHHHh
Confidence            9999999887

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.84  E-value=6.7e-20  Score=157.35  Aligned_cols=146  Identities=21%  Similarity=0.203  Sum_probs=105.2

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc------chhhc--cCCcEEEE
Q psy2300          28 GNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI------TTAYY--RGAMGFIL   99 (221)
Q Consensus        28 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~------~~~~~--~~~d~vi~   99 (221)
                      |.+|+|||||+|++.+..+.....+..+.+.....+..++  ..+.+|||||...+...      ...++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~~--~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQG--EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEECC--eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8999999999999998875444344444334434444443  46899999998776543      23333  47899999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|+++.+..   ..+...+.+   .+.|+++++||+|+.+...+. .+.+.+.+..+++++++||++|+|++++++++.
T Consensus        79 VvDat~ler~---l~l~~ql~~---~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLERN---LYLTLQLLE---LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchhh---HHHHHHHHh---cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            9999874321   222233333   379999999999986555444 345677788899999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +..
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            754

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>KOG4423|consensus

Probab=99.84  E-value=1.9e-22  Score=143.38  Aligned_cols=169  Identities=34%  Similarity=0.584  Sum_probs=145.3

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeE-EEEEEEeCCCcccccccchhhccCCcE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR-VKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ++..++++|+|.-++|||+++++++...|...+..+++..+..+.+..+... +++++||+.|++.+..+..-+++.+.+
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            4678999999999999999999999999999999999999888887766554 789999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccC-HHHHHHHHHHhCC-eEEEEecCCCCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVIS-FERGKHLAESLGV-EFFETSAKDNVN  170 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~-~~~~~Sa~~~~g  170 (221)
                      .++|||+++...|+....|.+.+....    ....|+|+..||||+....... ......+.+.+|+ ..+++|++.+.+
T Consensus       102 ~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkn  181 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKN  181 (229)
T ss_pred             eEEEEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccC
Confidence            999999999999999999999874432    2356789999999996543322 3567788888887 799999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q psy2300         171 VKGVFERLVDIICDKM  186 (221)
Q Consensus       171 i~~l~~~i~~~~~~~~  186 (221)
                      ++|.-+.+.+.+.-+-
T Consensus       182 i~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  182 IPEAQRELVEKILVND  197 (229)
T ss_pred             hhHHHHHHHHHHHhhc
Confidence            9999999998877654

>cd00880 Era_like Era (E

Probab=99.84  E-value=7e-20  Score=132.14  Aligned_cols=151  Identities=18%  Similarity=0.125  Sum_probs=101.6

Q ss_pred             EEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-------cchhhccCCcEE
Q psy2300          26 IIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-------ITTAYYRGAMGF   97 (221)
Q Consensus        26 vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~~~~~~~~d~v   97 (221)
                      ++|++|+|||||++++.+..... .................. ....+.+||+||......       ....++..+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            58999999999999999875431 112222222222222222 146799999999765443       333477899999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHH---HHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFE---RGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~---~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++|+|+.+........ +......   .+.|+++++||+|+.........   .........+.+++++|+.++.|+.++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~~---~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLRE---RGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHHh---cCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999877665554 3333333   48999999999998654322211   112222333578999999999999999


Q ss_pred             HHHHHHH
Q psy2300         175 FERLVDI  181 (221)
Q Consensus       175 ~~~i~~~  181 (221)
                      ++++.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9998764

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>KOG0072|consensus

Probab=99.84  E-value=3.3e-21  Score=131.53  Aligned_cols=160  Identities=21%  Similarity=0.334  Sum_probs=121.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +...+|+++|..|+|||+++.++.-... ....|+++  +.+..+..  ++..+++||.+|+-..+..|+.|+.+.|++|
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgev-vttkPtig--fnve~v~y--KNLk~~vwdLggqtSirPyWRcYy~dt~avI   90 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEV-VTTKPTIG--FNVETVPY--KNLKFQVWDLGGQTSIRPYWRCYYADTDAVI   90 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcc-cccCCCCC--cCcccccc--ccccceeeEccCcccccHHHHHHhcccceEE
Confidence            3678999999999999999988876654 23445555  44444433  6688999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHH-----HHHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHL-----AESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      ||+|.+|.+.+.-... +...+.+....+..++|++||+|.....  ...++...     .+..-+.+|.+||.+|+|++
T Consensus        91 yVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~--t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld  168 (182)
T KOG0072|consen   91 YVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGAL--TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLD  168 (182)
T ss_pred             EEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhh--hHHHHHHHhChHHHhhheeEEEeeccccccCCc
Confidence            9999999887766655 4444544445678899999999986532  22222111     12222689999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      +..+|+.+.+.++
T Consensus       169 ~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  169 PAMDWLQRPLKSR  181 (182)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999887653

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.84  E-value=7.3e-20  Score=160.89  Aligned_cols=155  Identities=17%  Similarity=0.166  Sum_probs=107.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--------ccccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--------YRTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   91 (221)
                      ...+|+++|.+|+|||||+|+|++... ....++++++...........+..+.+|||||.+.        +......++
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~-~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~  352 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRRE-AVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAV  352 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCc-eeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHH
Confidence            357899999999999999999998763 22344556665555444333346789999999653        223344567


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  170 (221)
                      ..+|++|+|+|+++.-...+ ..|...+..   .+.|+++|+||+|+....    .....+. ..+. ..+++||++|.|
T Consensus       353 ~~aD~iL~VvDa~~~~~~~d-~~i~~~Lr~---~~~pvIlV~NK~D~~~~~----~~~~~~~-~lg~~~~~~iSA~~g~G  423 (712)
T PRK09518        353 SLADAVVFVVDGQVGLTSTD-ERIVRMLRR---AGKPVVLAVNKIDDQASE----YDAAEFW-KLGLGEPYPISAMHGRG  423 (712)
T ss_pred             HhCCEEEEEEECCCCCCHHH-HHHHHHHHh---cCCCEEEEEECcccccch----hhHHHHH-HcCCCCeEEEECCCCCC
Confidence            89999999999986422211 234455544   389999999999985431    1112221 2233 467999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIICD  184 (221)
Q Consensus       171 i~~l~~~i~~~~~~  184 (221)
                      +++++++|++.+.+
T Consensus       424 I~eLl~~i~~~l~~  437 (712)
T PRK09518        424 VGDLLDEALDSLKV  437 (712)
T ss_pred             chHHHHHHHHhccc
Confidence            99999999987744

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.84  E-value=1.3e-19  Score=154.70  Aligned_cols=159  Identities=16%  Similarity=0.136  Sum_probs=104.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCcccc----ceeeeeEEEEEE------------eCCeEEEEEEEeCCCccccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVS----TVGIDFKVKTVF------------RHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~----~~~~~~~~~~~~------------~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ..-|+++|++++|||||+++|.+..+......    +.+.++......            +......+.||||||++.|.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            34699999999999999999998765432211    122222111100            00011238899999999999


Q ss_pred             ccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc----c--------CHHHH
Q psy2300          85 TITTAYYRGAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV----I--------SFERG  149 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~----~--------~~~~~  149 (221)
                      .++..++..+|++++|+|+++   +++++.+.    .+..   .+.|+++++||+|+.....    .        .....
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~----~l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v  156 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEALN----ILRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQV  156 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH----HHHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHH
Confidence            999889999999999999987   44444432    2222   3789999999999853100    0        00000


Q ss_pred             ------------HHHHH------------Hh--CCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         150 ------------KHLAE------------SL--GVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       150 ------------~~~~~------------~~--~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                                  ..+..            ..  .++++++||++|+|+++++++|.......+
T Consensus       157 ~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~~l  219 (590)
T TIGR00491       157 QQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQYL  219 (590)
T ss_pred             HHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHHHh
Confidence                        01110            01  258999999999999999998876654433

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.83  E-value=1.6e-19  Score=158.68  Aligned_cols=158  Identities=19%  Similarity=0.187  Sum_probs=106.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----------cccc-c
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----------YRTI-T   87 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~-~   87 (221)
                      ..++|+++|.+|+|||||+++|++.... ....+..+.+.....+..++.  .+.+|||||...          +..+ .
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHH
Confidence            4589999999999999999999988642 222222223333333444444  467999999532          1111 1


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-Hh----CCeEEE
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAE-SL----GVEFFE  162 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~----~~~~~~  162 (221)
                      ..+++.+|++++|+|++++.+..+... +..+..   .+.|+++|+||+|+.+...  .+....... ..    ..++++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~i-~~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~  600 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLKV-MSMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVN  600 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHHH-HHHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEE
Confidence            234688999999999999877777653 333333   3799999999999965322  112222111 11    246799


Q ss_pred             EecCCCCCHHHHHHHHHHHHHHh
Q psy2300         163 TSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      +||++|.|++++++.+.+.+.+.
T Consensus       601 iSAktg~gv~~L~~~i~~~~~~~  623 (712)
T PRK09518        601 LSAKTGWHTNRLAPAMQEALESW  623 (712)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999998887653

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.83  E-value=5e-19  Score=126.35  Aligned_cols=155  Identities=23%  Similarity=0.338  Sum_probs=116.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc--------cc----cceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSA--------FV----STVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~--------~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      -...||+|.|+.++||||++++++.......        ..    .|..+++....+  + .+..++++|||||+++..+
T Consensus         8 ~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~--~-~~~~v~LfgtPGq~RF~fm   84 (187)
T COG2229           8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIEL--D-EDTGVHLFGTPGQERFKFM   84 (187)
T ss_pred             ccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEE--c-CcceEEEecCCCcHHHHHH
Confidence            3578999999999999999999998763111        00    122233333222  2 2256899999999999999


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh--CCeEEEEe
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL--GVEFFETS  164 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~S  164 (221)
                      |+.+++++.++|+++|.+.+..+ +....+..+....  ..|++|.+||+|+.++  .+.+..+++....  .+++++.+
T Consensus        85 ~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~a--~ppe~i~e~l~~~~~~~~vi~~~  159 (187)
T COG2229          85 WEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFDA--LPPEKIREALKLELLSVPVIEID  159 (187)
T ss_pred             HHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCCC--CCHHHHHHHHHhccCCCceeeee
Confidence            99999999999999999998877 4444444443331  2999999999999775  3456666666655  78999999


Q ss_pred             cCCCCCHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDI  181 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~  181 (221)
                      +..++|..+.++.+...
T Consensus       160 a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         160 ATEGEGARDQLDVLLLK  176 (187)
T ss_pred             cccchhHHHHHHHHHhh
Confidence            99999999988876554

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.83  E-value=1.4e-19  Score=150.89  Aligned_cols=156  Identities=17%  Similarity=0.158  Sum_probs=105.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC--C---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT--S---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~--~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|++++|||||+++|+...-.  .                           ......+++.......+....
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~   83 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK   83 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC
Confidence            45799999999999999999999843210  0                           011134666666666666667


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhH-HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc----c
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV----I  144 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~-~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~----~  144 (221)
                      +.+.||||||++.|.......+..+|++++|+|++++.++ .....++..+...  ...|++|++||+|+.+...    .
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK~Dl~~~~~~~~~~  161 (425)
T PRK12317         84 YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINKMDAVNYDEKRYEE  161 (425)
T ss_pred             eEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEccccccccHHHHHH
Confidence            8899999999988766555667899999999999873122 1122222333332  1346999999999965221    1


Q ss_pred             CHHHHHHHHHHhC-----CeEEEEecCCCCCHHHHHH
Q psy2300         145 SFERGKHLAESLG-----VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       145 ~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ..++...++...+     ++++++||++|+|++++++
T Consensus       162 ~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        162 VKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             HHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            1234445554444     4799999999999987543

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.83  E-value=1.3e-19  Score=151.02  Aligned_cols=155  Identities=17%  Similarity=0.114  Sum_probs=105.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC--CCCC---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD--SFTS---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~--~~~~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|+.++|||||+.+|+..  ....                           ......+++.......+....
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~   84 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK   84 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC
Confidence            45799999999999999999999852  1110                           011122455555555555566


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHH--HHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc---
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSI--QDWITQIKTYSWDNAQVILVGNKCDMEDERVI---  144 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~--~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~---  144 (221)
                      +.+.|||+||++.|.......+..+|++++|+|+++++++...  ..++......  ...+++|++||+|+.+....   
T Consensus        85 ~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~--~~~~iIVviNK~Dl~~~~~~~~~  162 (426)
T TIGR00483        85 YEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL--GINQLIVAINKMDSVNYDEEEFE  162 (426)
T ss_pred             eEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc--CCCeEEEEEEChhccCccHHHHH
Confidence            8899999999998876666677899999999999987533111  1122222222  24579999999999642211   


Q ss_pred             -CHHHHHHHHHHhC-----CeEEEEecCCCCCHHHHH
Q psy2300         145 -SFERGKHLAESLG-----VEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       145 -~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l~  175 (221)
                       ..++...+++..+     ++++++||++|.|+.+++
T Consensus       163 ~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       163 AIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence             1234555565554     579999999999998744

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.82  E-value=1.1e-19  Score=146.83  Aligned_cols=152  Identities=18%  Similarity=0.169  Sum_probs=107.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc---------cccchhhcc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY---------RTITTAYYR   92 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~~~   92 (221)
                      ..|+++|-||+|||||.|||++... .-...++|+|.+.........+..+.++||+|-+..         .......+.
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~-AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~   82 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRI-AIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIE   82 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCee-eEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHH
Confidence            5799999999999999999999874 345566677766655544445567999999995522         233445678


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNV  171 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi  171 (221)
                      .||++|||+|....-+-.+- .....+..   .+.|+++|+||+|-...    .+...+| -.+|+ .++.+||.+|.|+
T Consensus        83 eADvilfvVD~~~Git~~D~-~ia~~Lr~---~~kpviLvvNK~D~~~~----e~~~~ef-yslG~g~~~~ISA~Hg~Gi  153 (444)
T COG1160          83 EADVILFVVDGREGITPADE-EIAKILRR---SKKPVILVVNKIDNLKA----EELAYEF-YSLGFGEPVPISAEHGRGI  153 (444)
T ss_pred             hCCEEEEEEeCCCCCCHHHH-HHHHHHHh---cCCCEEEEEEcccCchh----hhhHHHH-HhcCCCCceEeehhhccCH
Confidence            99999999998764322111 12222332   37999999999997422    1222222 33454 7999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2300         172 KGVFERLVDIIC  183 (221)
Q Consensus       172 ~~l~~~i~~~~~  183 (221)
                      .+|++++++.+.
T Consensus       154 ~dLld~v~~~l~  165 (444)
T COG1160         154 GDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHhhcC
Confidence            999999988874

>PRK10218 GTP-binding protein; Provisional

Probab=99.82  E-value=6.9e-19  Score=150.74  Aligned_cols=159  Identities=18%  Similarity=0.187  Sum_probs=113.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc--CCCCCc------------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD--DSFTSA------------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~--~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      ...+|+++|+.++|||||+++|+.  +.+...            ...+.++++......+.+.++.+.+|||||+..|..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            356899999999999999999996  333221            123456777777777777778999999999999998


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-CHHHHHHHHHH-------hC
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-SFERGKHLAES-------LG  157 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~-------~~  157 (221)
                      .+..+++.+|++++|+|+.+...... ..++..+..   .+.|.++++||+|+.+.+.. ..++...+...       ..
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt-~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~  159 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQT-RFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLD  159 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHH-HHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccC
Confidence            89999999999999999987533222 233333333   37899999999998654321 12233333322       24


Q ss_pred             CeEEEEecCCCC----------CHHHHHHHHHHHH
Q psy2300         158 VEFFETSAKDNV----------NVKGVFERLVDII  182 (221)
Q Consensus       158 ~~~~~~Sa~~~~----------gi~~l~~~i~~~~  182 (221)
                      ++++.+||.+|.          |+..+++.|++.+
T Consensus       160 ~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~i  194 (607)
T PRK10218        160 FPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHV  194 (607)
T ss_pred             CCEEEeEhhcCcccCCccccccchHHHHHHHHHhC
Confidence            679999999998          4677776655544

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.82  E-value=4.1e-19  Score=129.60  Aligned_cols=152  Identities=14%  Similarity=0.195  Sum_probs=99.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----------ccccchhhcc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----------YRTITTAYYR   92 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~~~~~~~~   92 (221)
                      .|+++|.+|+|||||++.+.+..+.....++.+.+........+.   .+.+||+||...          +......++.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~   77 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLE   77 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHH
Confidence            489999999999999999997665566666666655555544433   788999999432          2333333443


Q ss_pred             ---CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHH--HhCCeEEEEec
Q psy2300          93 ---GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAE--SLGVEFFETSA  165 (221)
Q Consensus        93 ---~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~--~~~~~~~~~Sa  165 (221)
                         ..+++++++|.++....... .....+...   +.|+++++||+|+.......  ........+  ....+++++|+
T Consensus        78 ~~~~~~~~~~v~d~~~~~~~~~~-~~~~~l~~~---~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa  153 (170)
T cd01876          78 NRENLKGVVLLIDSRHGPTEIDL-EMLDWLEEL---GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSS  153 (170)
T ss_pred             hChhhhEEEEEEEcCcCCCHhHH-HHHHHHHHc---CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEec
Confidence               35788999998765322211 122223332   68999999999985332211  112222222  23358999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDI  181 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~  181 (221)
                      +++.|+.+++++|.+.
T Consensus       154 ~~~~~~~~l~~~l~~~  169 (170)
T cd01876         154 LKGQGIDELRALIEKW  169 (170)
T ss_pred             CCCCCHHHHHHHHHHh
Confidence            9999999999998875

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.82  E-value=1.6e-19  Score=136.73  Aligned_cols=149  Identities=23%  Similarity=0.194  Sum_probs=95.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCc-----------------------------cccceeeeeEEEEEEeCCeEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSA-----------------------------FVSTVGIDFKVKTVFRHDKRVKLQ   73 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~   73 (221)
                      +|+++|++|+|||||+++|+...-...                             .....+++.......+...+..+.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            589999999999999999975421000                             000123444444444444556789


Q ss_pred             EEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC----HHHH
Q psy2300          74 IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS----FERG  149 (221)
Q Consensus        74 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~----~~~~  149 (221)
                      +|||||++.+...+...+..+|++++|+|++++..-. .......+...  ...++++|+||+|+.+.....    ..+.
T Consensus        81 liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~-~~~~~~~~~~~--~~~~iIvviNK~D~~~~~~~~~~~i~~~~  157 (208)
T cd04166          81 IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQ-TRRHSYILSLL--GIRHVVVAVNKMDLVDYSEEVFEEIVADY  157 (208)
T ss_pred             EEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHh-HHHHHHHHHHc--CCCcEEEEEEchhcccCCHHHHHHHHHHH
Confidence            9999999887665666788999999999998753211 11222222222  124578899999986432211    1234


Q ss_pred             HHHHHHhC---CeEEEEecCCCCCHHHH
Q psy2300         150 KHLAESLG---VEFFETSAKDNVNVKGV  174 (221)
Q Consensus       150 ~~~~~~~~---~~~~~~Sa~~~~gi~~l  174 (221)
                      ..+....+   .+++++||++|.|+.+.
T Consensus       158 ~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         158 LAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            44445555   35899999999999753

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.82  E-value=2.4e-19  Score=153.64  Aligned_cols=156  Identities=19%  Similarity=0.224  Sum_probs=112.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC--CCCCc------------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccch
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD--SFTSA------------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITT   88 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~--~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~   88 (221)
                      +|+++|+.++|||||+++|+..  .+...            .....+++.......+.+.++.+.+|||||+..|...+.
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            6999999999999999999863  22111            112335666665555556678999999999999988888


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-CHHHHHHHHH-------HhCCeE
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-SFERGKHLAE-------SLGVEF  160 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~  160 (221)
                      .++..+|++++|+|+.+.. ......|+..+...   +.|++|++||+|+.+.+.. -.++...+..       ...+++
T Consensus        83 ~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~~---~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pv  158 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEGP-MPQTRFVLKKALEL---GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPI  158 (594)
T ss_pred             HHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHHC---CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcE
Confidence            8999999999999998742 34444555555543   7899999999999654321 1233333332       234689


Q ss_pred             EEEecCCCC----------CHHHHHHHHHHHH
Q psy2300         161 FETSAKDNV----------NVKGVFERLVDII  182 (221)
Q Consensus       161 ~~~Sa~~~~----------gi~~l~~~i~~~~  182 (221)
                      +++||++|.          |+..+|+.|++.+
T Consensus       159 l~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~l  190 (594)
T TIGR01394       159 VYASGRAGWASLDLDDPSDNMAPLFDAIVRHV  190 (594)
T ss_pred             EechhhcCcccccCcccccCHHHHHHHHHHhC
Confidence            999999996          7888888777654

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.82  E-value=2.7e-19  Score=148.06  Aligned_cols=161  Identities=14%  Similarity=0.178  Sum_probs=104.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc-ccceeeeeEEE--------------------EEEeCC------eEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAF-VSTVGIDFKVK--------------------TVFRHD------KRVKL   72 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~--------------------~~~~~~------~~~~~   72 (221)
                      ..++|+++|+.++|||||+++|.+....... ....+++....                    ....++      ....+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            4689999999999999999999754221100 00111111110                    000011      13679


Q ss_pred             EEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHH
Q psy2300          73 QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGK  150 (221)
Q Consensus        73 ~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~  150 (221)
                      .+||+||++.|...+...+..+|++++|+|++++.........+..+...  ...|+++++||+|+.+....  ..++..
T Consensus        83 ~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~--gi~~iIVvvNK~Dl~~~~~~~~~~~~i~  160 (406)
T TIGR03680        83 SFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII--GIKNIVIVQNKIDLVSKEKALENYEEIK  160 (406)
T ss_pred             EEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc--CCCeEEEEEEccccCCHHHHHHHHHHHH
Confidence            99999999999888877888899999999998643111222223333332  23579999999999653221  123333


Q ss_pred             HHHHHh---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         151 HLAESL---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       151 ~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .+....   +++++++||++|+|+++++++|...+
T Consensus       161 ~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       161 EFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             hhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            444332   56899999999999999999988754

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.81  E-value=1.1e-18  Score=141.10  Aligned_cols=161  Identities=22%  Similarity=0.212  Sum_probs=118.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc----------cccccc-ch
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ----------ERYRTI-TT   88 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~----------~~~~~~-~~   88 (221)
                      ..++|+++|-||+|||||+|+|++..- .-..+..|+|.......+...+..+.++||+|-          +.|... ..
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR-~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~  255 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEER-VIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTL  255 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCce-EEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhH
Confidence            469999999999999999999999873 334566788888887777655667999999993          222221 22


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH----hC-CeEEEE
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES----LG-VEFFET  163 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----~~-~~~~~~  163 (221)
                      ..+..+|++++|+|++.+-+.++. .....+.+   .+.++++++||+|+.+......++.+.....    .+ .+++++
T Consensus       256 ~aI~~a~vvllviDa~~~~~~qD~-~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~i  331 (444)
T COG1160         256 KAIERADVVLLVIDATEGISEQDL-RIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFI  331 (444)
T ss_pred             hHHhhcCEEEEEEECCCCchHHHH-HHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEE
Confidence            357889999999999987665554 33344444   3899999999999866533344443333322    22 589999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHh
Q psy2300         164 SAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ||++|.|+.++|+.+.......
T Consensus       332 SA~~~~~i~~l~~~i~~~~~~~  353 (444)
T COG1160         332 SALTGQGLDKLFEAIKEIYECA  353 (444)
T ss_pred             EecCCCChHHHHHHHHHHHHHh
Confidence            9999999999999988776543

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.81  E-value=3.6e-18  Score=131.26  Aligned_cols=151  Identities=21%  Similarity=0.213  Sum_probs=99.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-------ccchhhccCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-------TITTAYYRGAM   95 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~~~~d   95 (221)
                      +|+++|.+|+|||||+++|.+........+..+.+.....+..+  +..+++||+||.....       ......++.+|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~--~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYK--GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEEC--CeEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            78999999999999999999876332222222222333333333  4679999999964322       12234688999


Q ss_pred             EEEEEEECCChh-hHHHHHHHHHHH-----------------------------------------Hhh-----------
Q psy2300          96 GFILMYDVTNEE-SFTSIQDWITQI-----------------------------------------KTY-----------  122 (221)
Q Consensus        96 ~vi~v~d~~~~~-s~~~~~~~~~~l-----------------------------------------~~~-----------  122 (221)
                      ++++|+|++++. ....+...+...                                         .++           
T Consensus        80 ~il~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~  159 (233)
T cd01896          80 LILMVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIRE  159 (233)
T ss_pred             EEEEEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEcc
Confidence            999999998754 333232222111                                         111           


Q ss_pred             -------------CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         123 -------------SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       123 -------------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                                   ...-.|+++|+||+|+..     .++...++..  .+++++||++|.|++++|+.|.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         160 DITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                         012358999999999853     3344444432  4689999999999999999988754

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.81  E-value=2.5e-18  Score=128.47  Aligned_cols=147  Identities=16%  Similarity=0.127  Sum_probs=100.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC-------C-------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF-------T-------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~-------~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      .++|+++|+.++|||||+++|+....       .       .......+++.......+.....++.++||||+..+...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            47899999999999999999985310       0       011123455555555555556678899999999887776


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHh-----C
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESL-----G  157 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~-----~  157 (221)
                      ....+..+|++++|+|+...-. ......+..+...   +.| +++++||+|+.......   .++...+....     +
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~-~~~~~~~~~~~~~---~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~  157 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPM-PQTREHLLLARQV---GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDN  157 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccC
Confidence            7777889999999999986432 2223334444443   566 78999999985322211   12344444443     3


Q ss_pred             CeEEEEecCCCCCH
Q psy2300         158 VEFFETSAKDNVNV  171 (221)
Q Consensus       158 ~~~~~~Sa~~~~gi  171 (221)
                      ++++++||++|.++
T Consensus       158 v~iipiSa~~g~n~  171 (195)
T cd01884         158 TPIVRGSALKALEG  171 (195)
T ss_pred             CeEEEeeCccccCC
Confidence            68999999999985

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.80  E-value=7.9e-19  Score=145.20  Aligned_cols=162  Identities=15%  Similarity=0.186  Sum_probs=102.3

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc-ccceeeeeEEE----EE------------E----eC------CeEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF-VSTVGIDFKVK----TV------------F----RH------DKRV   70 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~----~~------------~----~~------~~~~   70 (221)
                      ..+.++|+++|+.++|||||+.+|.+....... ....+++....    ..            .    .+      ....
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            346799999999999999999999653211110 11112222211    00            0    00      0125


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHH
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFE  147 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~  147 (221)
                      .+.||||||++.+..........+|++++|+|++++. ..... ..+..+...  ...|+++|+||+|+.+....  ..+
T Consensus        86 ~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~-~~l~~l~~~--~i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         86 RVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTK-EHLMALDII--GIKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHH-HHHHHHHHc--CCCcEEEEEEeeccccchhHHHHHH
Confidence            7999999999887765555566789999999999643 11211 222223222  23479999999999653321  123


Q ss_pred             HHHHHHHHh---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         148 RGKHLAESL---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       148 ~~~~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +...++...   +.+++++||++|.|+++++++|.+.+
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            344444332   46899999999999999999987755

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.80  E-value=9.8e-19  Score=141.75  Aligned_cols=155  Identities=19%  Similarity=0.184  Sum_probs=113.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc--------chhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI--------TTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~~   91 (221)
                      .-++|+++|.||+|||||+|.|++... .-+..-.|+|+++....++-.++.+.+.||+|..+-...        ....+
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~-AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i  294 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDR-AIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAI  294 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCc-eEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHH
Confidence            458999999999999999999999873 234445588888888777777789999999994422211        22357


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      ..||.+++|+|++.+..-.+.. .+.    ....+.|+++|.||.|+.........     ....+.+++.+|+++|+|+
T Consensus       295 ~~ADlvL~v~D~~~~~~~~d~~-~~~----~~~~~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~iSa~t~~Gl  364 (454)
T COG0486         295 EEADLVLFVLDASQPLDKEDLA-LIE----LLPKKKPIIVVLNKADLVSKIELESE-----KLANGDAIISISAKTGEGL  364 (454)
T ss_pred             HhCCEEEEEEeCCCCCchhhHH-HHH----hcccCCCEEEEEechhcccccccchh-----hccCCCceEEEEecCccCH
Confidence            8999999999999862222221 111    22358999999999999665332111     1122347899999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2300         172 KGVFERLVDIICDK  185 (221)
Q Consensus       172 ~~l~~~i~~~~~~~  185 (221)
                      +.+.+.|.+.+...
T Consensus       365 ~~L~~~i~~~~~~~  378 (454)
T COG0486         365 DALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999988877665

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.80  E-value=2e-18  Score=148.71  Aligned_cols=154  Identities=18%  Similarity=0.198  Sum_probs=104.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC---CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS---FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +-|+++|+.++|||||+++|++..   ++.+....++++.....+...+ +..+.|||+||++.|...+...+..+|+++
T Consensus         1 ~ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~-g~~i~~IDtPGhe~fi~~m~~g~~~~D~~l   79 (614)
T PRK10512          1 MIIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPD-GRVLGFIDVPGHEKFLSNMLAGVGGIDHAL   79 (614)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCC-CcEEEEEECCCHHHHHHHHHHHhhcCCEEE
Confidence            358999999999999999998643   2222222222222222222222 245899999999999877777889999999


Q ss_pred             EEEECCCh---hhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC--HHHHHHHHHHhC---CeEEEEecCCCC
Q psy2300          99 LMYDVTNE---ESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS--FERGKHLAESLG---VEFFETSAKDNV  169 (221)
Q Consensus        99 ~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~---~~~~~~Sa~~~~  169 (221)
                      +|+|+++.   ++.+.+    ..+...   +.| ++||+||+|+.+.....  .++...+....+   .+++++||++|.
T Consensus        80 LVVda~eg~~~qT~ehl----~il~~l---gi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~  152 (614)
T PRK10512         80 LVVACDDGVMAQTREHL----AILQLT---GNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGR  152 (614)
T ss_pred             EEEECCCCCcHHHHHHH----HHHHHc---CCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCC
Confidence            99999873   333333    223332   455 57999999996532221  233444444444   589999999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDIIC  183 (221)
Q Consensus       170 gi~~l~~~i~~~~~  183 (221)
                      |+++++++|.+...
T Consensus       153 gI~~L~~~L~~~~~  166 (614)
T PRK10512        153 GIDALREHLLQLPE  166 (614)
T ss_pred             CCHHHHHHHHHhhc
Confidence            99999999876543

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.80  E-value=1.9e-18  Score=148.09  Aligned_cols=160  Identities=17%  Similarity=0.163  Sum_probs=102.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc----cceeeeeEEEEEEe--CCeE-----E-----EEEEEeCCCcccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV----STVGIDFKVKTVFR--HDKR-----V-----KLQIWDTAGQERY   83 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~----~~~~~~~~~~~~~~--~~~~-----~-----~~~i~D~~g~~~~   83 (221)
                      +...|+++|++++|||||+++|.+..+.....    .+.+.++.......  .+..     .     .+.||||||++.|
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f   84 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAF   84 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHH
Confidence            44579999999999999999998664322211    12222222111100  0111     1     2689999999999


Q ss_pred             cccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc----cC-----------
Q psy2300          84 RTITTAYYRGAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV----IS-----------  145 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~----~~-----------  145 (221)
                      ..++...+..+|++++|+|+++   +++++.+..    +..   .+.|+++++||+|+.....    ..           
T Consensus        85 ~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~  157 (586)
T PRK04004         85 TNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQR  157 (586)
T ss_pred             HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHH
Confidence            9888888899999999999987   555554432    222   3799999999999842100    00           


Q ss_pred             -HH-------HHHHHHHHh---------------CCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         146 -FE-------RGKHLAESL---------------GVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       146 -~~-------~~~~~~~~~---------------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                       .+       +........               .++++++||++|+|++++++.+...+...+
T Consensus       158 v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~~~~l  221 (586)
T PRK04004        158 VQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLAQRYL  221 (586)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHHHHHH
Confidence             00       010111111               257899999999999999998876544333

>COG2262 HflX GTPases [General function prediction only]

Probab=99.80  E-value=3e-18  Score=136.67  Aligned_cols=168  Identities=16%  Similarity=0.141  Sum_probs=121.1

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc---------cc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ---------ER   82 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~---------~~   82 (221)
                      .+..........|+++|..|+|||||+|+|++........-..+.+.....+.+.+ +..+.+.||-|.         +.
T Consensus       183 ~R~~R~~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~A  261 (411)
T COG2262         183 RRKKRSRSGIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEA  261 (411)
T ss_pred             HhhhhcccCCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHH
Confidence            34444455788999999999999999999998775444334444444455555543 356889999983         22


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEE
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFE  162 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  162 (221)
                      |.+..+ ....+|++++|+|+++|...+.+......+........|+++|.||+|+.....     .........-..+.
T Consensus       262 FksTLE-E~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~-----~~~~~~~~~~~~v~  335 (411)
T COG2262         262 FKSTLE-EVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE-----ILAELERGSPNPVF  335 (411)
T ss_pred             HHHHHH-HhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh-----hhhhhhhcCCCeEE
Confidence            333222 357899999999999998888888888888777666799999999999754322     11111111115899


Q ss_pred             EecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         163 TSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      +||++|+|++.|++.|.+.+....
T Consensus       336 iSA~~~~gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         336 ISAKTGEGLDLLRERIIELLSGLR  359 (411)
T ss_pred             EEeccCcCHHHHHHHHHHHhhhcc
Confidence            999999999999999999887553

>KOG1489|consensus

Probab=99.79  E-value=2.2e-18  Score=132.81  Aligned_cols=156  Identities=14%  Similarity=0.216  Sum_probs=111.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeE-EEEEEEeCCCccc-------ccccchhhcc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR-VKLQIWDTAGQER-------YRTITTAYYR   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~i~D~~g~~~-------~~~~~~~~~~   92 (221)
                      ...|.+||.||+|||||+++++..+  +...+...+|..+..-.+.... .++++=|+||.-+       .......+++
T Consensus       196 iadvGLVG~PNAGKSTLL~als~AK--pkVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiE  273 (366)
T KOG1489|consen  196 IADVGLVGFPNAGKSTLLNALSRAK--PKVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIE  273 (366)
T ss_pred             ecccceecCCCCcHHHHHHHhhccC--CcccccceeeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHH
Confidence            3458999999999999999999988  3444444444444443333333 3499999999321       1122233567


Q ss_pred             CCcEEEEEEECCCh---hhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecC
Q psy2300          93 GAMGFILMYDVTNE---ESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAK  166 (221)
Q Consensus        93 ~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~  166 (221)
                      .++.++||+|++..   ..++.++.+..+++.+.  ....|.++|+||+|+++.+.   ..+..+.+...- .++++||+
T Consensus       274 R~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~---~~l~~L~~~lq~~~V~pvsA~  350 (366)
T KOG1489|consen  274 RCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEK---NLLSSLAKRLQNPHVVPVSAK  350 (366)
T ss_pred             hhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHH---HHHHHHHHHcCCCcEEEeeec
Confidence            89999999999987   78888888777775544  46899999999999963321   223455555543 49999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDI  181 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~  181 (221)
                      +++|+.++++.|.+.
T Consensus       351 ~~egl~~ll~~lr~~  365 (366)
T KOG1489|consen  351 SGEGLEELLNGLREL  365 (366)
T ss_pred             cccchHHHHHHHhhc
Confidence            999999999887653

>KOG1423|consensus

Probab=99.79  E-value=2.8e-18  Score=131.54  Aligned_cols=169  Identities=15%  Similarity=0.187  Sum_probs=113.1

Q ss_pred             hhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc---------
Q psy2300          11 KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE---------   81 (221)
Q Consensus        11 ~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------   81 (221)
                      +.+.+++..+.+.|+|+|.||+|||||.|.+.+.+..+......+++....-+ +.....++.|+||||--         
T Consensus        62 esrde~e~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi-~ts~eTQlvf~DTPGlvs~~~~r~~~  140 (379)
T KOG1423|consen   62 ESRDEEEAQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGI-ITSGETQLVFYDTPGLVSKKMHRRHH  140 (379)
T ss_pred             cCCCchhcceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEE-EecCceEEEEecCCcccccchhhhHH
Confidence            34444556689999999999999999999999999776655555544444444 33455789999999921         


Q ss_pred             ---cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc-------------ccC
Q psy2300          82 ---RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER-------------VIS  145 (221)
Q Consensus        82 ---~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~-------------~~~  145 (221)
                         .+....+..+..||++++|+|+++.....+- ..+..+..+.  ..|-++|+||.|....+             .+.
T Consensus       141 l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p-~vl~~l~~ys--~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~  217 (379)
T KOG1423|consen  141 LMMSVLQNPRDAAQNADCVVVVVDASATRTPLHP-RVLHMLEEYS--KIPSILVMNKIDKLKQKRLLLNLKDLLTNGELA  217 (379)
T ss_pred             HHHHhhhCHHHHHhhCCEEEEEEeccCCcCccCh-HHHHHHHHHh--cCCceeeccchhcchhhhHHhhhHHhccccccc
Confidence               1112334567889999999999963322221 3445556664  89999999999964321             111


Q ss_pred             ---HHHHHHHHHHh---------CC----eEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         146 ---FERGKHLAESL---------GV----EFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       146 ---~~~~~~~~~~~---------~~----~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                         .+-.+.+....         ++    .+|.+||++|+||+++.++|.....
T Consensus       218 ~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  218 KLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             hhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence               11111111111         11    3899999999999999998876553

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.79  E-value=2.7e-18  Score=132.17  Aligned_cols=114  Identities=17%  Similarity=0.122  Sum_probs=82.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC----C---------c---cccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFT----S---------A---FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~----~---------~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      +|+++|+.|+|||||+++|+...-.    .         .   .....+.+.......+...+.++.+|||||+..+...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            4899999999999999999763210    0         0   0112233444444444556678999999999988888


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +..+++.+|++++|+|+.+.... ....++..+...   +.|+++++||+|+.+
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~~---~~P~iivvNK~D~~~  130 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQA-QTRILWRLLRKL---NIPTIIFVNKIDRAG  130 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHHc---CCCEEEEEECccccC
Confidence            88899999999999999986543 333444444443   799999999999853

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.79  E-value=3.6e-18  Score=119.30  Aligned_cols=134  Identities=26%  Similarity=0.346  Sum_probs=96.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----cccccchhhccCCcEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----RYRTITTAYYRGAMGFI   98 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~~~d~vi   98 (221)
                      ||+|+|+.|||||||+++|.+...  .+..|..+.+.            =.++||||.-    .+.........+||+|+
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~--~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~   68 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI--RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVL   68 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC--CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEE
Confidence            799999999999999999998763  34444432222            1257999832    22222334457899999


Q ss_pred             EEEECCChhh-HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHH
Q psy2300          99 LMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        99 ~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|.|++++.+ |..-  +    ...  -+.|+|=|+||+|+... ....+..+++.+.-|+ .+|++|+.+|+|+++|.+
T Consensus        69 ll~dat~~~~~~pP~--f----a~~--f~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~  139 (143)
T PF10662_consen   69 LLQDATEPRSVFPPG--F----ASM--FNKPVIGVITKIDLPSD-DANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKD  139 (143)
T ss_pred             EEecCCCCCccCCch--h----hcc--cCCCEEEEEECccCccc-hhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHH
Confidence            9999998642 2111  1    111  16899999999999732 2356677788888887 689999999999999999


Q ss_pred             HHH
Q psy2300         177 RLV  179 (221)
Q Consensus       177 ~i~  179 (221)
                      +|-
T Consensus       140 ~L~  142 (143)
T PF10662_consen  140 YLE  142 (143)
T ss_pred             HHh
Confidence            874

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.78  E-value=9.4e-19  Score=133.53  Aligned_cols=148  Identities=17%  Similarity=0.127  Sum_probs=95.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC--C---------------------------CccccceeeeeEEEEEEeCCeEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF--T---------------------------SAFVSTVGIDFKVKTVFRHDKRVKLQ   73 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~--~---------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (221)
                      +|+++|+.++|||||+.+|+...-  .                           .......+++.......+...+..+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            489999999999999999863210  0                           00111234555555555555668899


Q ss_pred             EEeCCCcccccccchhhccCCcEEEEEEECCChhh------HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC--cccC
Q psy2300          74 IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEES------FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE--RVIS  145 (221)
Q Consensus        74 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s------~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~--~~~~  145 (221)
                      +|||||+..+...+...+..+|++++|+|+++...      .......+......  ...|+++++||+|+...  ....
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~  158 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWSEER  158 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEccccccccccHHH
Confidence            99999988776666667788999999999987421      11112222222222  24689999999999632  1111


Q ss_pred             HH----HHHHHHHHhC-----CeEEEEecCCCCCHH
Q psy2300         146 FE----RGKHLAESLG-----VEFFETSAKDNVNVK  172 (221)
Q Consensus       146 ~~----~~~~~~~~~~-----~~~~~~Sa~~~~gi~  172 (221)
                      .+    ++..+....+     ++++++||++|+|++
T Consensus       159 ~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         159 YDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            11    2222333332     579999999999987

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.78  E-value=1.1e-17  Score=122.05  Aligned_cols=164  Identities=17%  Similarity=0.220  Sum_probs=117.3

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC----------ccc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG----------QER   82 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~   82 (221)
                      ..+-|.+...-|+++|-+|+|||||||+|++++-..-...|+|.|.....+.+++.   +.+.|.||          .+.
T Consensus        16 ~~~~P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~   92 (200)
T COG0218          16 IKQYPEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEK   92 (200)
T ss_pred             HhhCCCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHH
Confidence            34556667889999999999999999999998755667788999999888877764   77999999          345


Q ss_pred             ccccchhhccC---CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh---
Q psy2300          83 YRTITTAYYRG---AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL---  156 (221)
Q Consensus        83 ~~~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~---  156 (221)
                      +..+...|+..   -.++++++|+..+-...+. +.+..+...   +.|++|++||+|.....+.. .......+..   
T Consensus        93 w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~~---~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~  167 (200)
T COG0218          93 WKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLEL---GIPVIVVLTKADKLKKSERN-KQLNKVAEELKKP  167 (200)
T ss_pred             HHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHHc---CCCeEEEEEccccCChhHHH-HHHHHHHHHhcCC
Confidence            66666666653   4578889998765433222 233333333   89999999999986643322 1112222222   


Q ss_pred             -CCe--EEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         157 -GVE--FFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       157 -~~~--~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                       ...  ++..|+.++.|++++...|.+.+..
T Consensus       168 ~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         168 PPDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             CCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence             222  7889999999999999988887654

>PRK12736 elongation factor Tu; Reviewed

Probab=99.78  E-value=8.1e-18  Score=138.74  Aligned_cols=159  Identities=14%  Similarity=0.132  Sum_probs=105.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC--------------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT--------------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ...++|+++|+.++|||||+++|++....              .......+++.......+......+.++||||++.|.
T Consensus        10 k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~   89 (394)
T PRK12736         10 KPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYV   89 (394)
T ss_pred             CCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHH
Confidence            35799999999999999999999863100              0111234556666555555556678999999999887


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHhC---
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESLG---  157 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~---  157 (221)
                      ......+..+|++++|+|+.+...-. ...++..+...   +.| +++++||+|+.+.....   .++...+....+   
T Consensus        90 ~~~~~~~~~~d~~llVvd~~~g~~~~-t~~~~~~~~~~---g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~  165 (394)
T PRK12736         90 KNMITGAAQMDGAILVVAATDGPMPQ-TREHILLARQV---GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPG  165 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHc---CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCc
Confidence            76666778899999999998642212 22333333333   677 67899999986432221   123444544444   


Q ss_pred             --CeEEEEecCCCC--------CHHHHHHHHHHH
Q psy2300         158 --VEFFETSAKDNV--------NVKGVFERLVDI  181 (221)
Q Consensus       158 --~~~~~~Sa~~~~--------gi~~l~~~i~~~  181 (221)
                        ++++++||++|.        ++.++++.+.+.
T Consensus       166 ~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~  199 (394)
T PRK12736        166 DDIPVIRGSALKALEGDPKWEDAIMELMDAVDEY  199 (394)
T ss_pred             CCccEEEeeccccccCCCcchhhHHHHHHHHHHh
Confidence              579999999983        455655555543

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.78  E-value=3.3e-18  Score=144.19  Aligned_cols=157  Identities=19%  Similarity=0.210  Sum_probs=116.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc------ccccchhhc--c
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER------YRTITTAYY--R   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~------~~~~~~~~~--~   92 (221)
                      ..+|+++|.||+|||||.|++++..  ......+|+|...++......+..+++.|+||--.      -....++++  .
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~--q~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~   80 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGAN--QKVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEG   80 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccC--ceecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcC
Confidence            3569999999999999999999988  45556667777777776665666799999999322      223334444  3


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      ..|+++-|+|+++-+.  ++.-.++ +.+.   +.|++++.|++|..+.+.+. -+.+++.+..|+|+++++|++|+|++
T Consensus        81 ~~D~ivnVvDAtnLeR--nLyltlQ-LlE~---g~p~ilaLNm~D~A~~~Gi~-ID~~~L~~~LGvPVv~tvA~~g~G~~  153 (653)
T COG0370          81 KPDLIVNVVDATNLER--NLYLTLQ-LLEL---GIPMILALNMIDEAKKRGIR-IDIEKLSKLLGVPVVPTVAKRGEGLE  153 (653)
T ss_pred             CCCEEEEEcccchHHH--HHHHHHH-HHHc---CCCeEEEeccHhhHHhcCCc-ccHHHHHHHhCCCEEEEEeecCCCHH
Confidence            5799999999998653  2222222 2333   89999999999986655444 34566778889999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++.+.+.+...++.
T Consensus       154 ~l~~~i~~~~~~~~  167 (653)
T COG0370         154 ELKRAIIELAESKT  167 (653)
T ss_pred             HHHHHHHHhccccc
Confidence            99998887554443

>cd04167 Snu114p Snu114p subfamily

Probab=99.78  E-value=4.2e-18  Score=129.51  Aligned_cols=113  Identities=24%  Similarity=0.262  Sum_probs=79.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCc-----------------cccceeeeeEEEEEEe-----CCeEEEEEEEeCCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSA-----------------FVSTVGIDFKVKTVFR-----HDKRVKLQIWDTAGQ   80 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~-----------------~~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~g~   80 (221)
                      +|+++|+.++|||||+++|+.......                 .....+++........     ++..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            589999999999999999987543211                 0111223332222221     345688999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ..+......++..+|++++|+|+.+..+... ..++.....   .+.|+++++||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            9888778888999999999999987665533 234343332   369999999999974

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.78  E-value=8e-18  Score=138.86  Aligned_cols=159  Identities=16%  Similarity=0.151  Sum_probs=105.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC-------CC-------CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD-------SF-------TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~-------~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      .+.++|+++|++++|||||+++|+..       .+       ........+++.......+.....++.|+||||++.|.
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~   89 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYV   89 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHH
Confidence            46799999999999999999999862       10       00111234555555555555555678999999998887


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEE-EEEeCCCCCCCcccC---HHHHHHHHHHhC---
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI-LVGNKCDMEDERVIS---FERGKHLAESLG---  157 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~~---  157 (221)
                      ......+..+|++++|+|+.+... .....++..+...   +.|.+ +++||+|+.+.....   ..+...+...++   
T Consensus        90 ~~~~~~~~~aD~~llVvda~~g~~-~qt~e~l~~~~~~---gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~  165 (396)
T PRK12735         90 KNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPG  165 (396)
T ss_pred             HHHHhhhccCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCc
Confidence            766677889999999999987432 2222333444332   67855 679999996432211   123444555443   


Q ss_pred             --CeEEEEecCCCC----------CHHHHHHHHHHH
Q psy2300         158 --VEFFETSAKDNV----------NVKGVFERLVDI  181 (221)
Q Consensus       158 --~~~~~~Sa~~~~----------gi~~l~~~i~~~  181 (221)
                        ++++++|+.+|.          ++.+|++.|.+.
T Consensus       166 ~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~  201 (396)
T PRK12735        166 DDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSY  201 (396)
T ss_pred             CceeEEecchhccccCCCCCcccccHHHHHHHHHhc
Confidence              678999999985          566666665543

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=1.3e-17  Score=129.41  Aligned_cols=160  Identities=18%  Similarity=0.198  Sum_probs=115.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc-----ccccccch---hhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ-----ERYRTITT---AYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-----~~~~~~~~---~~~   91 (221)
                      ....|+|.|+||+|||||++++++.+  ++..+.+.+|..+...+++....+++++||||-     ++.+.+..   ..+
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~Ak--pEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL  244 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAK--PEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILAL  244 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCC--CccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHH
Confidence            56789999999999999999999998  555555555566666666666678999999992     22222211   122


Q ss_pred             -cCCcEEEEEEECCC--hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300          92 -RGAMGFILMYDVTN--EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus        92 -~~~d~vi~v~d~~~--~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                       .-.++|+|++|.+.  ..+.+.-..++..+....  ..|+++|+||+|..+...  .++........+. ....+++..
T Consensus       245 ~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f--~~p~v~V~nK~D~~~~e~--~~~~~~~~~~~~~~~~~~~~~~~  320 (346)
T COG1084         245 RHLAGVILFLFDPSETCGYSLEEQISLLEEIKELF--KAPIVVVINKIDIADEEK--LEEIEASVLEEGGEEPLKISATK  320 (346)
T ss_pred             HHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhc--CCCeEEEEecccccchhH--HHHHHHHHHhhccccccceeeee
Confidence             23789999999986  456677667888887776  599999999999864433  3344433444444 467889999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2300         168 NVNVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~  185 (221)
                      +.+++.+.+.+.....+.
T Consensus       321 ~~~~d~~~~~v~~~a~~~  338 (346)
T COG1084         321 GCGLDKLREEVRKTALEP  338 (346)
T ss_pred             hhhHHHHHHHHHHHhhch
Confidence            999999888887765544

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.77  E-value=1.6e-17  Score=137.17  Aligned_cols=147  Identities=18%  Similarity=0.144  Sum_probs=99.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC-------------C-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF-------------T-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~-------------~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      .+.++|+++|+.++|||||+++|+....             . .......+++.......++..+.++.||||||++.|.
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~   89 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYV   89 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHHH
Confidence            4679999999999999999999974210             0 0112224556666666665566789999999999887


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEE-EEEeCCCCCCCcccC---HHHHHHHHHHhC---
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI-LVGNKCDMEDERVIS---FERGKHLAESLG---  157 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~~---  157 (221)
                      ......+..+|++++|+|+.+..... ....+..+...   +.|.+ +++||+|+.+.....   .++...++..++   
T Consensus        90 ~~~~~~~~~~D~~ilVvda~~g~~~q-t~e~l~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~  165 (394)
T TIGR00485        90 KNMITGAAQMDGAILVVSATDGPMPQ-TREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPG  165 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCcHH-HHHHHHHHHHc---CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCc
Confidence            66666677899999999998742222 22333333333   66755 689999986533211   124555565554   


Q ss_pred             --CeEEEEecCCCC
Q psy2300         158 --VEFFETSAKDNV  169 (221)
Q Consensus       158 --~~~~~~Sa~~~~  169 (221)
                        ++++++|+.+|.
T Consensus       166 ~~~~ii~vSa~~g~  179 (394)
T TIGR00485       166 DDTPIIRGSALKAL  179 (394)
T ss_pred             cCccEEECcccccc
Confidence              689999999885

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.76  E-value=3.5e-17  Score=124.90  Aligned_cols=154  Identities=16%  Similarity=0.162  Sum_probs=96.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccc------------eeeeeEEE--EE----------------------EeC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVST------------VGIDFKVK--TV----------------------FRH   66 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~------------~~~~~~~~--~~----------------------~~~   66 (221)
                      ||+++|+.++|||||+.+|..+.+.......            .|.+....  .+                      ...
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            5899999999999999999976553311100            01110000  00                      011


Q ss_pred             CeEEEEEEEeCCCcccccccchhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYR--GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      .....+.++|+||++.|.......+.  .+|++++|+|+.++.. .....++..+...   +.|+++++||+|+.+....
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~~---~ip~ivvvNK~D~~~~~~~  156 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALAL---NIPVFVVVTKIDLAPANIL  156 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEECccccCHHHH
Confidence            12357899999999888665544443  6899999999886543 2223344444443   7899999999998543221


Q ss_pred             C--HHHHHHHHHH--------------------------hCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         145 S--FERGKHLAES--------------------------LGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       145 ~--~~~~~~~~~~--------------------------~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      .  .++...+...                          ...++|.+|+.+|+|++++...|..
T Consensus       157 ~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         157 QETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            1  1122222221                          0138999999999999999887743

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>KOG0077|consensus

Probab=99.75  E-value=3.7e-18  Score=119.47  Aligned_cols=156  Identities=20%  Similarity=0.289  Sum_probs=118.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...-|++++|..|+|||||++.|.++.. ..+.||.-.+.....+    .+.+++-+|.+|+..-+..|..++..+|+++
T Consensus        18 kK~gKllFlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPTSE~l~I----g~m~ftt~DLGGH~qArr~wkdyf~~v~~iv   92 (193)
T KOG0077|consen   18 KKFGKLLFLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPTSEELSI----GGMTFTTFDLGGHLQARRVWKDYFPQVDAIV   92 (193)
T ss_pred             ccCceEEEEeecCCchhhHHHHHccccc-cccCCCcCCChHHhee----cCceEEEEccccHHHHHHHHHHHHhhhceeE
Confidence            3456899999999999999999998875 4556665544444444    4578999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH---HHh---C-----------CeE
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLA---ESL---G-----------VEF  160 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~---~~~---~-----------~~~  160 (221)
                      +.+|+.|.+.|.+.+..+..+.. ....+.|+++.+||+|.+.+.  +.++.+...   ...   +           +.+
T Consensus        93 ~lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~ev  170 (193)
T KOG0077|consen   93 YLVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEV  170 (193)
T ss_pred             eeeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEE
Confidence            99999999998888776555422 224689999999999997764  333322221   111   1           247


Q ss_pred             EEEecCCCCCHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |.||...+.|-.+.|.|+...
T Consensus       171 fmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  171 FMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEEEEccCccceeeeehhhh
Confidence            889999999988888887654

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.75  E-value=5.2e-17  Score=126.62  Aligned_cols=164  Identities=18%  Similarity=0.143  Sum_probs=110.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-------ccccchhhccCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-------YRTITTAYYRGA   94 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~~   94 (221)
                      .-|.+||.||+|||||+++++..+..-...|.++..-..-.+..+ ..-.+.+=|+||--+       .......++..+
T Consensus       160 ADVGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~~-~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt  238 (369)
T COG0536         160 ADVGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRVD-GGESFVVADIPGLIEGASEGVGLGLRFLRHIERT  238 (369)
T ss_pred             cccccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEec-CCCcEEEecCcccccccccCCCccHHHHHHHHhh
Confidence            348899999999999999999987333333333222222222222 234588899999311       111123356789


Q ss_pred             cEEEEEEECCChh---hHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEE-EecCCC
Q psy2300          95 MGFILMYDVTNEE---SFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFE-TSAKDN  168 (221)
Q Consensus        95 d~vi~v~d~~~~~---s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~  168 (221)
                      .++++|+|++..+   ..++...+..++..+.  ..+.|.+||+||+|+....+........+.+..+...+. +|+.++
T Consensus       239 ~vL~hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~  318 (369)
T COG0536         239 RVLLHVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTR  318 (369)
T ss_pred             heeEEEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcc
Confidence            9999999998533   4666666777776654  468999999999997655443333344444444543222 999999


Q ss_pred             CCHHHHHHHHHHHHHHhh
Q psy2300         169 VNVKGVFERLVDIICDKM  186 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~~~  186 (221)
                      +|++++...+.+.+.+..
T Consensus       319 ~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         319 EGLDELLRALAELLEETK  336 (369)
T ss_pred             cCHHHHHHHHHHHHHHhh
Confidence            999999999999888775

>CHL00071 tufA elongation factor Tu

Probab=99.74  E-value=7.5e-17  Score=133.66  Aligned_cols=150  Identities=15%  Similarity=0.099  Sum_probs=101.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCC--------------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFT--------------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      ....++|+++|++++|||||+++|++..-.              .......+++.......+..+..++.|.||||+..|
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~   88 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHH
Confidence            456799999999999999999999864210              011122455555555555555567889999999888


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHhC--
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESLG--  157 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~--  157 (221)
                      .......+..+|++++|+|+.+... ......+..+...   +.| +++++||+|+.+.....   .+++..+....+  
T Consensus        89 ~~~~~~~~~~~D~~ilVvda~~g~~-~qt~~~~~~~~~~---g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~  164 (409)
T CHL00071         89 VKNMITGAAQMDGAILVVSAADGPM-PQTKEHILLAKQV---GVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFP  164 (409)
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCCc-HHHHHHHHHHHHc---CCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            7767777889999999999986432 2223333344433   678 77899999996533211   123444444443  


Q ss_pred             ---CeEEEEecCCCCCH
Q psy2300         158 ---VEFFETSAKDNVNV  171 (221)
Q Consensus       158 ---~~~~~~Sa~~~~gi  171 (221)
                         ++++++|+.+|.++
T Consensus       165 ~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        165 GDDIPIVSGSALLALEA  181 (409)
T ss_pred             CCcceEEEcchhhcccc
Confidence               68999999999753

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.74  E-value=7.5e-17  Score=122.61  Aligned_cols=113  Identities=19%  Similarity=0.198  Sum_probs=78.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC--CCc------------cccceeeeeE--EEEEEeC--------CeEEEEEEEeCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF--TSA------------FVSTVGIDFK--VKTVFRH--------DKRVKLQIWDTA   78 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~--~~~------------~~~~~~~~~~--~~~~~~~--------~~~~~~~i~D~~   78 (221)
                      +|+++|+.++|||||+.+|+...-  ...            .....+++..  ...+...        +..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            689999999999999999975421  000            0011122222  2222222        336889999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      |+..|......+++.+|++++|+|+.+.........+ .....   .+.|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l-~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVL-RQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCCcc
Confidence            9999998888899999999999999987554443222 22222   368999999999975

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.73  E-value=1.2e-16  Score=131.46  Aligned_cols=155  Identities=18%  Similarity=0.169  Sum_probs=110.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC---eEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD---KRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +..-|+++|+-..|||||+..+-.........  -++|..+..+.+..   ..-.++|+|||||+.|..++..-..-+|+
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~Ea--GGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDI   81 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAGEA--GGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDI   81 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccccC--CceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccE
Confidence            34678999999999999999998877543322  24444444443332   22468999999999999999988899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC---------CeEEEEecCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG---------VEFFETSAKD  167 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~  167 (221)
                      ++||++++|.-    ..+....+......+.|++|.+||+|.++..   +.........++         ..++++||++
T Consensus        82 aILVVa~dDGv----~pQTiEAI~hak~a~vP~iVAiNKiDk~~~n---p~~v~~el~~~gl~~E~~gg~v~~VpvSA~t  154 (509)
T COG0532          82 AILVVAADDGV----MPQTIEAINHAKAAGVPIVVAINKIDKPEAN---PDKVKQELQEYGLVPEEWGGDVIFVPVSAKT  154 (509)
T ss_pred             EEEEEEccCCc----chhHHHHHHHHHHCCCCEEEEEecccCCCCC---HHHHHHHHHHcCCCHhhcCCceEEEEeeccC
Confidence            99999999842    1122233333333599999999999997542   333333333333         4589999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDIIC  183 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~  183 (221)
                      |+|+++|++.+.-...
T Consensus       155 g~Gi~eLL~~ill~ae  170 (509)
T COG0532         155 GEGIDELLELILLLAE  170 (509)
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999988765443

>PLN03126 Elongation factor Tu; Provisional

Probab=99.73  E-value=2.3e-16  Score=132.22  Aligned_cols=150  Identities=17%  Similarity=0.091  Sum_probs=101.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCC------CCC--------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDS------FTS--------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~------~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      .....++|+++|++++|||||+++|+...      ...        ......+++.......+..+..++.++|+||++.
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~  156 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHAD  156 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHH
Confidence            34568999999999999999999998521      100        1122345555555544444556889999999998


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHh--
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESL--  156 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~--  156 (221)
                      |.......+..+|++++|+|+.+...- ....++..+...   +.| +++++||+|+.+.....   .+++..+....  
T Consensus       157 f~~~~~~g~~~aD~ailVVda~~G~~~-qt~e~~~~~~~~---gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~  232 (478)
T PLN03126        157 YVKNMITGAAQMDGAILVVSGADGPMP-QTKEHILLAKQV---GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEF  232 (478)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCC
Confidence            887777778899999999999875322 223344444443   677 78899999996532211   12344444443  


Q ss_pred             ---CCeEEEEecCCCCC
Q psy2300         157 ---GVEFFETSAKDNVN  170 (221)
Q Consensus       157 ---~~~~~~~Sa~~~~g  170 (221)
                         +++++++|+.+|.+
T Consensus       233 ~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        233 PGDDIPIISGSALLALE  249 (478)
T ss_pred             CcCcceEEEEEcccccc
Confidence               46899999998854

>KOG0462|consensus

Probab=99.73  E-value=8.4e-17  Score=131.92  Aligned_cols=168  Identities=18%  Similarity=0.200  Sum_probs=124.3

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCC--CC-----------ccccceeeeeEEEEEEe---CCeEEEEEEE
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSF--TS-----------AFVSTVGIDFKVKTVFR---HDKRVKLQIW   75 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~-----------~~~~~~~~~~~~~~~~~---~~~~~~~~i~   75 (221)
                      .....|.++.-++.++-+-..|||||..+|+...-  +.           +.+...|+|....+..+   ++..+.+.++
T Consensus        51 ~~~~~P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLI  130 (650)
T KOG0462|consen   51 EFSLDPVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLI  130 (650)
T ss_pred             ccccCchhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEee
Confidence            34445667788899999999999999999875321  00           12233466665554433   3445899999


Q ss_pred             eCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHH-HHHHHH
Q psy2300          76 DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFER-GKHLAE  154 (221)
Q Consensus        76 D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~  154 (221)
                      |||||..|.......+..|+++|+|+|++..-.-+...++...++.    +..+|.|+||+|++.++....+. .+++..
T Consensus       131 DTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~----~L~iIpVlNKIDlp~adpe~V~~q~~~lF~  206 (650)
T KOG0462|consen  131 DTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEA----GLAIIPVLNKIDLPSADPERVENQLFELFD  206 (650)
T ss_pred             cCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHc----CCeEEEeeeccCCCCCCHHHHHHHHHHHhc
Confidence            9999999988888889999999999999987666666666666654    89999999999998865433222 223333


Q ss_pred             HhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         155 SLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       155 ~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ....+++.+||++|.|+++++++|++.+-
T Consensus       207 ~~~~~~i~vSAK~G~~v~~lL~AII~rVP  235 (650)
T KOG0462|consen  207 IPPAEVIYVSAKTGLNVEELLEAIIRRVP  235 (650)
T ss_pred             CCccceEEEEeccCccHHHHHHHHHhhCC
Confidence            33357999999999999999999888763

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.72  E-value=3.9e-16  Score=117.25  Aligned_cols=157  Identities=16%  Similarity=0.190  Sum_probs=96.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceee---eeEEEEEEeCCeEEEEEEEeCCCcccccccc-----hhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGI---DFKVKTVFRHDKRVKLQIWDTAGQERYRTIT-----TAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----~~~~~~   93 (221)
                      ++|+++|.+|+|||||+|.|++...+.......+.   +.....+... ....+.+||+||........     ...+..
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~   80 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFSE   80 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCccC
Confidence            78999999999999999999986643322222221   1111111111 12368999999964322222     222577


Q ss_pred             CcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcc-----------cCHHHHHHHHH----HhC
Q psy2300          94 AMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERV-----------ISFERGKHLAE----SLG  157 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~-----------~~~~~~~~~~~----~~~  157 (221)
                      +|++++|.+.    ++.... .|+..+...   +.|+++|+||+|+.....           .-.++.+..+.    ..+
T Consensus        81 ~d~~l~v~~~----~~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~  153 (197)
T cd04104          81 YDFFIIISST----RFSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAG  153 (197)
T ss_pred             cCEEEEEeCC----CCCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcC
Confidence            8998888542    222232 355555554   689999999999832111           00111111111    212


Q ss_pred             ---CeEEEEecC--CCCCHHHHHHHHHHHHHHhh
Q psy2300         158 ---VEFFETSAK--DNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       158 ---~~~~~~Sa~--~~~gi~~l~~~i~~~~~~~~  186 (221)
                         -++|.+|+.  .+.|+..+.+.|+..+.+..
T Consensus       154 ~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         154 VSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             CCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence               368999998  67999999999999887553

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>KOG1707|consensus

Probab=99.72  E-value=2.2e-17  Score=136.24  Aligned_cols=177  Identities=24%  Similarity=0.287  Sum_probs=132.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+++|+.|+||||||-.+....|+++..+....-.-+  ..+.-..+...+.|++..+.........++.||++.+
T Consensus         8 kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IP--advtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~l   85 (625)
T KOG1707|consen    8 KDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIP--ADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICL   85 (625)
T ss_pred             cceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccC--CccCcCcCceEEEecccccchhHHHHHHHhhcCEEEE
Confidence            56999999999999999999999999877655543311111  2223344668899998665544445667899999999


Q ss_pred             EEECCChhhHHHHHH-HHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHH-HHHHHHHhC-C-eEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQD-WITQIKTYS--WDNAQVILVGNKCDMEDERVISFER-GKHLAESLG-V-EFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~-~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~~-~-~~~~~Sa~~~~gi~~  173 (221)
                      ||+.+++++++.+.. |+..+.+..  ..+.|+|+|+||.|.......+.+. ....+..+. + ..++|||++-.++.+
T Consensus        86 vyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e  165 (625)
T KOG1707|consen   86 VYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSE  165 (625)
T ss_pred             EEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHh
Confidence            999999999999987 999987654  3579999999999986554443333 334443332 2 478999999999999


Q ss_pred             HHHHHHHHHHHhhccccCCCCCCCC
Q psy2300         174 VFERLVDIICDKMSESLDSDPNLVA  198 (221)
Q Consensus       174 l~~~i~~~~~~~~~~~~~~~~~~~~  198 (221)
                      +|-...+.+......-++.+++...
T Consensus       166 ~fYyaqKaVihPt~PLyda~~qelk  190 (625)
T KOG1707|consen  166 LFYYAQKAVIHPTSPLYDAEEQELK  190 (625)
T ss_pred             hhhhhhheeeccCcccccccccccc
Confidence            9999888888777666666655533

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.72  E-value=9.5e-17  Score=132.84  Aligned_cols=150  Identities=23%  Similarity=0.212  Sum_probs=96.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCC--CC-----------------------------ccccceeeeeEEEEEEeCCeEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSF--TS-----------------------------AFVSTVGIDFKVKTVFRHDKRV   70 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~--~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~   70 (221)
                      ++|+++|+.++|||||+.+|+...-  ..                             ..+...+++.......+.....
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            4899999999999999999974321  00                             0001123344444444445556


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH----
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF----  146 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~----  146 (221)
                      ++.|+||||++.|.......+..+|++++|+|+..+..-+.. .....+...  ...+++|++||+|+.+......    
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~-~~~~~~~~~--~~~~iivviNK~D~~~~~~~~~~~i~  157 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTR-RHSYIASLL--GIRHVVLAVNKMDLVDYDEEVFENIK  157 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccH-HHHHHHHHc--CCCcEEEEEEecccccchHHHHHHHH
Confidence            899999999998876666778999999999999864322211 112222222  1346899999999864322111    


Q ss_pred             HHHHHHHHHhC---CeEEEEecCCCCCHHHH
Q psy2300         147 ERGKHLAESLG---VEFFETSAKDNVNVKGV  174 (221)
Q Consensus       147 ~~~~~~~~~~~---~~~~~~Sa~~~~gi~~l  174 (221)
                      ++...+....+   ++++++||.+|+|+++.
T Consensus       158 ~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       158 KDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             HHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence            12223333333   46999999999999863

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.72  E-value=1e-16  Score=134.72  Aligned_cols=155  Identities=22%  Similarity=0.209  Sum_probs=98.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCC--CCc-----------cc------------------cceeeeeEEEEEEeC
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSF--TSA-----------FV------------------STVGIDFKVKTVFRH   66 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~~-----------~~------------------~~~~~~~~~~~~~~~   66 (221)
                      ....++|+++|+.++|||||+.+|+...-  ...           ..                  ...+++.......+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            34679999999999999999999975421  000           00                  012333444444444


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF  146 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~  146 (221)
                      ....++.|+||||++.|.......+..+|++++|+|+.+...-..... ...+...  ...+++|++||+|+.+......
T Consensus       104 ~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~-~~l~~~l--g~~~iIvvvNKiD~~~~~~~~~  180 (474)
T PRK05124        104 TEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRH-SFIATLL--GIKHLVVAVNKMDLVDYSEEVF  180 (474)
T ss_pred             cCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHH-HHHHHHh--CCCceEEEEEeeccccchhHHH
Confidence            455689999999998887666666799999999999986422111111 1122222  1357899999999864322112


Q ss_pred             HHH----HHHHHHh----CCeEEEEecCCCCCHHHHH
Q psy2300         147 ERG----KHLAESL----GVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       147 ~~~----~~~~~~~----~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++.    ..+....    ..+++++||++|.|++++-
T Consensus       181 ~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        181 ERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             HHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            222    2222332    3679999999999998753

>PRK00049 elongation factor Tu; Reviewed

Probab=99.71  E-value=3.6e-16  Score=129.04  Aligned_cols=147  Identities=17%  Similarity=0.153  Sum_probs=98.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC--------------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT--------------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ...++|+++|+.++|||||+++|+.....              .......+++.......+.....++.|+||||+..|.
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~   89 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYV   89 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHH
Confidence            46799999999999999999999863110              0111234555555555555555678999999998877


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEE-EEEeCCCCCCCcccC---HHHHHHHHHHh----
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI-LVGNKCDMEDERVIS---FERGKHLAESL----  156 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~----  156 (221)
                      ......+..+|++++|+|+.++.. .....++..+...   +.|.+ +++||+|+.+.....   ..+...+....    
T Consensus        90 ~~~~~~~~~aD~~llVVDa~~g~~-~qt~~~~~~~~~~---g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~  165 (396)
T PRK00049         90 KNMITGAAQMDGAILVVSAADGPM-PQTREHILLARQV---GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPG  165 (396)
T ss_pred             HHHHhhhccCCEEEEEEECCCCCc-hHHHHHHHHHHHc---CCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCc
Confidence            666677889999999999987432 2223334444443   68875 689999996422211   12333343333    


Q ss_pred             -CCeEEEEecCCCC
Q psy2300         157 -GVEFFETSAKDNV  169 (221)
Q Consensus       157 -~~~~~~~Sa~~~~  169 (221)
                       +++++++|+++|.
T Consensus       166 ~~~~iv~iSa~~g~  179 (396)
T PRK00049        166 DDTPIIRGSALKAL  179 (396)
T ss_pred             cCCcEEEeeccccc
Confidence             3689999999975

>cd04169 RF3 RF3 subfamily

Probab=99.71  E-value=4.2e-16  Score=121.95  Aligned_cols=116  Identities=16%  Similarity=0.145  Sum_probs=81.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCC--C--Ccc----------------ccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSF--T--SAF----------------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~--~--~~~----------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      -+|+++|++|+|||||+++|+...-  .  ...                ....+.+.......+.+.++.+.+|||||+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            4699999999999999999975310  0  000                0012334444445556667899999999998


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      .|.......++.+|++++|+|+++.... ....++.....   .+.|+++++||+|+.+.
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCCC
Confidence            8877667778999999999999875332 22233333333   37999999999998654

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.71  E-value=1.5e-16  Score=132.73  Aligned_cols=151  Identities=15%  Similarity=0.133  Sum_probs=104.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC--CC---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF--TS---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      .+.++|+++|+.++|||||+.+|+...-  ..                           ..+...+++.......+....
T Consensus         5 k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~   84 (447)
T PLN00043          5 KVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTK   84 (447)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCC
Confidence            4568999999999999999999874210  00                           011123455555555566667


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHH-------HHHHHHHHHHhhCCCCC-cEEEEEeCCCCCCC
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFT-------SIQDWITQIKTYSWDNA-QVILVGNKCDMEDE  141 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~-------~~~~~~~~l~~~~~~~~-p~ivv~nK~Dl~~~  141 (221)
                      ..++++|+||++.|.......+..+|++|+|+|+.+. .|+       .....+......   +. +++|++||+|+...
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~~---gi~~iIV~vNKmD~~~~  160 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFTL---GVKQMICCCNKMDATTP  160 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHHc---CCCcEEEEEEcccCCch
Confidence            8899999999999998888889999999999999873 222       233333333332   66 57889999998521


Q ss_pred             c--c----cCHHHHHHHHHHhC-----CeEEEEecCCCCCHHH
Q psy2300         142 R--V----ISFERGKHLAESLG-----VEFFETSAKDNVNVKG  173 (221)
Q Consensus       142 ~--~----~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  173 (221)
                      .  .    ...+++..++...+     ++++++|+++|+|+.+
T Consensus       161 ~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        161 KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            1  1    11344566666555     5799999999999854

>KOG1490|consensus

Probab=99.71  E-value=5.9e-17  Score=131.59  Aligned_cols=199  Identities=20%  Similarity=0.142  Sum_probs=145.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----cccccch-----
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----RYRTITT-----   88 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~-----   88 (221)
                      .++.-.++|+|.||+|||||++.++.........+  .++......+++....+++++||||.-    +...+.+     
T Consensus       165 Dp~trTlllcG~PNVGKSSf~~~vtradvevqpYa--FTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsIT  242 (620)
T KOG1490|consen  165 DPNTRTLLVCGYPNVGKSSFNNKVTRADDEVQPYA--FTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIIT  242 (620)
T ss_pred             CCCcCeEEEecCCCCCcHhhcccccccccccCCcc--cccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHH
Confidence            34677899999999999999999999885444444  444444445556677889999999931    1111111     


Q ss_pred             hhccCCcEEEEEEECCC--hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH---HHHHHhCCeEEEE
Q psy2300          89 AYYRGAMGFILMYDVTN--EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK---HLAESLGVEFFET  163 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~--~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~---~~~~~~~~~~~~~  163 (221)
                      ....--.+|+|+.|++.  +.|.+.-..++..++-.. .+.|.|+|+||+|+...+.++.+...   .....-+++++++
T Consensus       243 ALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~t  321 (620)
T KOG1490|consen  243 ALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQT  321 (620)
T ss_pred             HHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEe
Confidence            11122346889999886  456666556777765433 58999999999999776666654432   2223334789999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHhhccccCCCCCCC-CCCCCCccccCCCCCCCCCCCC
Q psy2300         164 SAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV-AGPKGTRLTEQPQRNNPINPNC  219 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~c  219 (221)
                      |+.+.+|+.++....++.++..+.+...+.++.. .-..+.++..|+.+..+.++.|
T Consensus       322 S~~~eegVm~Vrt~ACe~LLa~RVE~Klks~~~~n~vlnr~hvA~p~~rd~~~r~p~  378 (620)
T KOG1490|consen  322 SCVQEEGVMDVRTTACEALLAARVEQKLKSESRVNNVLNRIHLAEPAARDEVARPPC  378 (620)
T ss_pred             cccchhceeeHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCCCcccccccCCC
Confidence            9999999999999999998888766666665555 6788999999999999999988

>KOG1145|consensus

Probab=99.71  E-value=2.7e-16  Score=128.98  Aligned_cols=154  Identities=18%  Similarity=0.142  Sum_probs=111.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +..-|.++|+...|||||+..|-.........-.++....-.++.++ .+-.++|.|||||..|..++..-..-+|++++
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVL  230 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVVL  230 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEEE
Confidence            56678999999999999999998876543322222222223333334 33679999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC---------CeEEEEecCCCCC
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG---------VEFFETSAKDNVN  170 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~g  170 (221)
                      |+.++|.-    +.+....+......+.|+||.+||+|.+++.   .+........+|         .+++++||++|+|
T Consensus       231 VVAadDGV----mpQT~EaIkhAk~A~VpiVvAinKiDkp~a~---pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~n  303 (683)
T KOG1145|consen  231 VVAADDGV----MPQTLEAIKHAKSANVPIVVAINKIDKPGAN---PEKVKRELLSQGIVVEDLGGDVQVIPISALTGEN  303 (683)
T ss_pred             EEEccCCc----cHhHHHHHHHHHhcCCCEEEEEeccCCCCCC---HHHHHHHHHHcCccHHHcCCceeEEEeecccCCC
Confidence            99999853    2233344444445699999999999987654   344333333333         4689999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         171 VKGVFERLVDI  181 (221)
Q Consensus       171 i~~l~~~i~~~  181 (221)
                      ++.|-+++.-.
T Consensus       304 l~~L~eaill~  314 (683)
T KOG1145|consen  304 LDLLEEAILLL  314 (683)
T ss_pred             hHHHHHHHHHH
Confidence            99988886543

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.71  E-value=2.5e-16  Score=133.57  Aligned_cols=118  Identities=14%  Similarity=0.141  Sum_probs=82.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CC--C----------------ccccceeeeeEEEEEEeCCeEEEEEEEeCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FT--S----------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTA   78 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~--~----------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   78 (221)
                      ....+|+++|++++|||||+++|+...  ..  .                ......++++......+...++.+.+||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            356799999999999999999997411  00  0                001112444444444555566889999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      |+..|......++..+|++|+|+|+.+.... ....++.....   .+.|+++++||+|+..
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~D~~~  145 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKLDRDG  145 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECCcccc
Confidence            9998887677788999999999999875322 23333333333   3899999999999743

>PLN03127 Elongation factor Tu; Provisional

Probab=99.70  E-value=7.4e-16  Score=128.47  Aligned_cols=161  Identities=14%  Similarity=0.120  Sum_probs=103.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcC------CCC--------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADD------SFT--------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~------~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      .....++|+++|+.++|||||+++|.+.      ...        ...+...+++.......+...+.++.|+||||+..
T Consensus        57 ~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~  136 (447)
T PLN03127         57 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHAD  136 (447)
T ss_pred             cCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccc
Confidence            3346899999999999999999999732      100        01122245666666666665667899999999988


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccCH---HHHHHHHHHh--
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVISF---ERGKHLAESL--  156 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~~---~~~~~~~~~~--  156 (221)
                      |.......+..+|++++|+|+.+... ......+..+...   +.| +++++||+|+.+......   .+...+....  
T Consensus       137 f~~~~~~g~~~aD~allVVda~~g~~-~qt~e~l~~~~~~---gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~  212 (447)
T PLN03127        137 YVKNMITGAAQMDGGILVVSAPDGPM-PQTKEHILLARQV---GVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKF  212 (447)
T ss_pred             hHHHHHHHHhhCCEEEEEEECCCCCc-hhHHHHHHHHHHc---CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCC
Confidence            76666666778999999999986532 2223333444443   688 578899999964322111   1222333322  


Q ss_pred             ---CCeEEEEecC---CCCC-------HHHHHHHHHHH
Q psy2300         157 ---GVEFFETSAK---DNVN-------VKGVFERLVDI  181 (221)
Q Consensus       157 ---~~~~~~~Sa~---~~~g-------i~~l~~~i~~~  181 (221)
                         .++++++|+.   +|.|       +.+++++|.+.
T Consensus       213 ~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~  250 (447)
T PLN03127        213 PGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEY  250 (447)
T ss_pred             CCCcceEEEeccceeecCCCcccccchHHHHHHHHHHh
Confidence               3578888775   4555       55666655544

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.70  E-value=7.4e-16  Score=119.39  Aligned_cols=155  Identities=21%  Similarity=0.209  Sum_probs=106.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------cccccchhhcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------RYRTITTAYYR   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~   92 (221)
                      .-.+|+++|.|++|||||+++|++........+  .+|.....-.+..++.++++.|+||.-       .........++
T Consensus        62 Gda~v~lVGfPsvGKStLL~~LTnt~seva~y~--FTTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R  139 (365)
T COG1163          62 GDATVALVGFPSVGKSTLLNKLTNTKSEVADYP--FTTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVAR  139 (365)
T ss_pred             CCeEEEEEcCCCccHHHHHHHHhCCCccccccC--ceecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeec
Confidence            457899999999999999999999884444333  444555554555566889999999831       11233455689


Q ss_pred             CCcEEEEEEECCChhh-HHHHHHHHHHH-----------------------------------------Hhh--------
Q psy2300          93 GAMGFILMYDVTNEES-FTSIQDWITQI-----------------------------------------KTY--------  122 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s-~~~~~~~~~~l-----------------------------------------~~~--------  122 (221)
                      .||++++|+|+..+.. .+-+...+...                                         .++        
T Consensus       140 ~ADlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~  219 (365)
T COG1163         140 NADLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVL  219 (365)
T ss_pred             cCCEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEE
Confidence            9999999999985443 33222222211                                         000        


Q ss_pred             ----------------CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         123 ----------------SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       123 ----------------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                                      ...-.|.++|.||.|+..     .++...+.+..  .++++||..+.|++++.+.|.+.+-
T Consensus       220 Ir~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         220 IREDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             EecCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhC
Confidence                            001358899999999855     23444444433  7899999999999999999999774

>cd01850 CDC_Septin CDC/Septin

Probab=99.69  E-value=1.1e-15  Score=120.08  Aligned_cols=142  Identities=15%  Similarity=0.244  Sum_probs=91.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCc----------cccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-----
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSA----------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-----   84 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-----   84 (221)
                      ..++|+|+|.+|+|||||+|+|++..+...          ..++.........+..++..+++.+|||||.....     
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            358999999999999999999998876443          23333444444555556667899999999932111     


Q ss_pred             ---------------------ccchhhcc--CCcEEEEEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          85 ---------------------TITTAYYR--GAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        85 ---------------------~~~~~~~~--~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                                           ..+...+.  .+|+++|+++.+... +... ...+..+.    ...|+++|+||+|+..
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l~----~~v~vi~VinK~D~l~  157 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRLS----KRVNIIPVIAKADTLT  157 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHh----ccCCEEEEEECCCcCC
Confidence                                 11112222  478888888876422 1111 23334443    2689999999999854


Q ss_pred             Ccc--cCHHHHHHHHHHhCCeEEEEecC
Q psy2300         141 ERV--ISFERGKHLAESLGVEFFETSAK  166 (221)
Q Consensus       141 ~~~--~~~~~~~~~~~~~~~~~~~~Sa~  166 (221)
                      ..+  .......+.+..+++++|.....
T Consensus       158 ~~e~~~~k~~i~~~l~~~~i~~~~~~~~  185 (276)
T cd01850         158 PEELKEFKQRIMEDIEEHNIKIYKFPED  185 (276)
T ss_pred             HHHHHHHHHHHHHHHHHcCCceECCCCC
Confidence            322  22344566677788888876653

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.69  E-value=6e-16  Score=129.15  Aligned_cols=152  Identities=16%  Similarity=0.116  Sum_probs=101.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTS---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|+.++|||||+.+|+...  ...                           ......+++.......+....
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~   84 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC
Confidence            457899999999999999999987521  000                           011123455555555556667


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCC--
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SF---TSIQDWITQIKTYSWDNAQ-VILVGNKCDMED--  140 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~--  140 (221)
                      ..+.|+|+||+..|.......+..+|++++|+|+.+..   .+   ......+..+...   +.| ++|++||+|...  
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~---gi~~iiv~vNKmD~~~~~  161 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL---GVKQMIVCINKMDDKTVN  161 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc---CCCeEEEEEEccccccch
Confidence            88999999999999888888889999999999998642   11   1223333333333   666 679999999532  


Q ss_pred             CcccCH----HHHHHHHHHh-----CCeEEEEecCCCCCHHH
Q psy2300         141 ERVISF----ERGKHLAESL-----GVEFFETSAKDNVNVKG  173 (221)
Q Consensus       141 ~~~~~~----~~~~~~~~~~-----~~~~~~~Sa~~~~gi~~  173 (221)
                      ..+..+    +++..+....     +++++++|+.+|+|+.+
T Consensus       162 ~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        162 YSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            111112    2233333333     36799999999999864

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.69  E-value=4.4e-16  Score=135.65  Aligned_cols=155  Identities=22%  Similarity=0.205  Sum_probs=98.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-------------cc------------------cceeeeeEEEEEE
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-------------FV------------------STVGIDFKVKTVF   64 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-------------~~------------------~~~~~~~~~~~~~   64 (221)
                      .+....++|+++|++++|||||+++|+...-.-.             ..                  ...+++.......
T Consensus        19 ~~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~   98 (632)
T PRK05506         19 HERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRY   98 (632)
T ss_pred             ccCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeE
Confidence            3445678999999999999999999986431000             00                  0113333333334


Q ss_pred             eCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          65 RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        65 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      +.....++.|+||||++.+.......+..+|++++|+|+.+...-+ .......+...  ...+++|++||+|+.+....
T Consensus        99 ~~~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~-t~e~~~~~~~~--~~~~iivvvNK~D~~~~~~~  175 (632)
T PRK05506         99 FATPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQ-TRRHSFIASLL--GIRHVVLAVNKMDLVDYDQE  175 (632)
T ss_pred             EccCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCcccc-CHHHHHHHHHh--CCCeEEEEEEecccccchhH
Confidence            4445567889999999887666666788999999999997643211 11122222222  13678999999998642211


Q ss_pred             CHH----HHHHHHHHhC---CeEEEEecCCCCCHHH
Q psy2300         145 SFE----RGKHLAESLG---VEFFETSAKDNVNVKG  173 (221)
Q Consensus       145 ~~~----~~~~~~~~~~---~~~~~~Sa~~~~gi~~  173 (221)
                      ..+    +...+....+   .+++++||++|.|+.+
T Consensus       176 ~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        176 VFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            112    2223334444   4699999999999985

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.68  E-value=1.4e-16  Score=125.16  Aligned_cols=145  Identities=17%  Similarity=0.166  Sum_probs=89.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC----ccc--c----------ceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTS----AFV--S----------TVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~----~~~--~----------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      +|+++|++|+|||||+++++......    ...  .          ..+.+.......+...++.+.+|||||+..+...
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~   80 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGE   80 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHH
Confidence            48999999999999999997532110    000  0          0122222222233334578999999999877777


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEE--e
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFET--S  164 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~--S  164 (221)
                      +..++..+|++++|+|+++.........| ..+..   .+.|+++++||+|+.....  .+....+....+.+++.+  .
T Consensus        81 ~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~~~--~~~~~~l~~~~~~~~~~~~ip  154 (268)
T cd04170          81 TRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERADF--DKTLAALQEAFGRPVVPLQLP  154 (268)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCCCH--HHHHHHHHHHhCCCeEEEEec
Confidence            77889999999999999886544333333 23333   3789999999999865421  122333333445444333  3


Q ss_pred             cCCCCCHHH
Q psy2300         165 AKDNVNVKG  173 (221)
Q Consensus       165 a~~~~gi~~  173 (221)
                      ..+|.++..
T Consensus       155 ~~~~~~~~~  163 (268)
T cd04170         155 IGEGDDFKG  163 (268)
T ss_pred             ccCCCceeE
Confidence            444444433

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.68  E-value=4e-16  Score=122.17  Aligned_cols=115  Identities=19%  Similarity=0.123  Sum_probs=80.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC--C--C------------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF--T--S------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~--~--~------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      +|+++|++|+|||||+++|+...-  .  .            ......+++.......+...+.++.+|||||+..+...
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~   80 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIE   80 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHH
Confidence            489999999999999999974210  0  0            01112244444444444445678999999999888777


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      +...++.+|++++|+|+.+...-.. ..++..+..   .+.|+++++||+|+.+.
T Consensus        81 ~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~---~~~p~ivviNK~D~~~a  131 (270)
T cd01886          81 VERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR---YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             HHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCCC
Confidence            8888999999999999987532222 233333433   37899999999998653

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>PRK13351 elongation factor G; Reviewed

Probab=99.68  E-value=6e-16  Score=136.15  Aligned_cols=118  Identities=15%  Similarity=0.144  Sum_probs=84.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC----Cc---------c---ccceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT----SA---------F---VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~----~~---------~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      +...+|+|+|+.++|||||+++|+...-.    ..         +   ....+.+.......+.+....+.+|||||+..
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~d   85 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHID   85 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHH
Confidence            45689999999999999999999853200    00         0   00122233322233334567899999999998


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +...+..+++.+|++++|+|+++.........| ..+..   .+.|+++++||+|+..
T Consensus        86 f~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~~  139 (687)
T PRK13351         86 FTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCCC
Confidence            888888899999999999999987665554444 33333   3799999999999854

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.68  E-value=7.5e-16  Score=128.33  Aligned_cols=162  Identities=12%  Similarity=0.126  Sum_probs=103.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeee----eEEEE------------E-EeCC-------------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGID----FKVKT------------V-FRHD-------------   67 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~----~~~~~------------~-~~~~-------------   67 (221)
                      ...++|+++|+...|||||+.+|++...... .+...|++    +....            + ....             
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            4578999999999999999999997532110 11111111    11000            0 0000             


Q ss_pred             ---eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          68 ---KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        68 ---~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                         -...+.|+|+||++.|.......+..+|++++|+|+.++.........+..+...  .-.+++|++||+|+.+....
T Consensus       112 ~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~l--gi~~iIVvlNKiDlv~~~~~  189 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIM--KLKHIIILQNKIDLVKEAQA  189 (460)
T ss_pred             cccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHc--CCCcEEEEEecccccCHHHH
Confidence               0236899999999998887777788999999999998742112222333333332  13568999999999643221


Q ss_pred             --CHHHHHHHHHH---hCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         145 --SFERGKHLAES---LGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       145 --~~~~~~~~~~~---~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                        ..++...+...   .+.+++++||++|.|++.|++.|.+.+
T Consensus       190 ~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        190 QDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence              11223333322   256899999999999999999887643

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.67  E-value=1.8e-15  Score=120.68  Aligned_cols=81  Identities=19%  Similarity=0.268  Sum_probs=53.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccc------cceeeeeEEEE---------------EEeCC-eEEEEEEEeCCCc-
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFV------STVGIDFKVKT---------------VFRHD-KRVKLQIWDTAGQ-   80 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~------~~~~~~~~~~~---------------~~~~~-~~~~~~i~D~~g~-   80 (221)
                      |+++|.||+|||||+++|++........      |..+..+....               ...++ ..+.+++||++|. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            5899999999999999999987532222      22232222110               00122 3468999999996 


Q ss_pred             ---ccccccchh---hccCCcEEEEEEECC
Q psy2300          81 ---ERYRTITTA---YYRGAMGFILMYDVT  104 (221)
Q Consensus        81 ---~~~~~~~~~---~~~~~d~vi~v~d~~  104 (221)
                         +....+...   .++.+|++++|+|+.
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence               334334334   489999999999986

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>TIGR00503 prfC peptide chain release factor 3

Probab=99.67  E-value=3e-15  Score=127.00  Aligned_cols=117  Identities=15%  Similarity=0.172  Sum_probs=82.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC-CCCC-------------------ccccceeeeeEEEEEEeCCeEEEEEEEeCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD-SFTS-------------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTA   78 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~-~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   78 (221)
                      ....+|+|+|++++|||||+++|+.. ....                   ......++++......++..++.+.+||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            45789999999999999999998632 1100                   011122455555555666677899999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      |+..|.......+..+|++|+|+|+.+.-. .....++.....   .+.|+++++||+|+.
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~  145 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRD  145 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECcccc
Confidence            998887766667899999999999987421 222334333333   379999999999973

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>KOG1191|consensus

Probab=99.66  E-value=3.5e-16  Score=127.05  Aligned_cols=172  Identities=18%  Similarity=0.174  Sum_probs=117.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-ccc--------cchhhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-YRT--------ITTAYY   91 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~--------~~~~~~   91 (221)
                      -++|+++|.||+|||||+|.|..... .-..|..|+|.+.....++..++.+.+.||+|-.+ -..        .....+
T Consensus       268 gl~iaIvGrPNvGKSSLlNaL~~~dr-sIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~  346 (531)
T KOG1191|consen  268 GLQIAIVGRPNVGKSSLLNALSREDR-SIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRI  346 (531)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhcCCc-eEeCCCCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHH
Confidence            48999999999999999999999874 44667789999999888888889999999999433 111        122346


Q ss_pred             cCCcEEEEEEECC--ChhhHHHHHHHHHHHHhhC------CCCCcEEEEEeCCCCCCC-cccCHHHHHHHHHHh---CCe
Q psy2300          92 RGAMGFILMYDVT--NEESFTSIQDWITQIKTYS------WDNAQVILVGNKCDMEDE-RVISFERGKHLAESL---GVE  159 (221)
Q Consensus        92 ~~~d~vi~v~d~~--~~~s~~~~~~~~~~l~~~~------~~~~p~ivv~nK~Dl~~~-~~~~~~~~~~~~~~~---~~~  159 (221)
                      ..+|++++|+|+.  +-++-..+...+.......      ....|++++.||.|+... .+.... ...+....   ..+
T Consensus       347 ~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~-~~~~~~~~~~~~~~  425 (531)
T KOG1191|consen  347 ERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKI-PVVYPSAEGRSVFP  425 (531)
T ss_pred             hhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCC-ceeccccccCcccc
Confidence            7899999999994  3333333333333332211      235789999999998543 111110 01111111   133


Q ss_pred             -EEEEecCCCCCHHHHHHHHHHHHHHhhccccCCCC
Q psy2300         160 -FFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP  194 (221)
Q Consensus       160 -~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~~~~~  194 (221)
                       ..++|+++++|++.|.+.+.+.+...........+
T Consensus       426 i~~~vs~~tkeg~~~L~~all~~~~~~~~~~~s~~~  461 (531)
T KOG1191|consen  426 IVVEVSCTTKEGCERLSTALLNIVERLVVSPHSAPP  461 (531)
T ss_pred             eEEEeeechhhhHHHHHHHHHHHHHHhhcCCCCCch
Confidence             45699999999999999999988777654444433

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.66  E-value=1.6e-15  Score=115.38  Aligned_cols=161  Identities=22%  Similarity=0.338  Sum_probs=99.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe-CCeEEEEEEEeCCCccccc-----ccchhhccCCcE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-HDKRVKLQIWDTAGQERYR-----TITTAYYRGAMG   96 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~-----~~~~~~~~~~d~   96 (221)
                      ||+++|+.++||||+.+.+..+..+.+ ....+.|..+....+ ....+.+.+||+||+..+.     ......++.+++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~d-T~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~   79 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRD-TLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGV   79 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGG-GGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchh-ccccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCE
Confidence            799999999999999998887764333 233444444444433 2344689999999986443     345677899999


Q ss_pred             EEEEEECCChh---hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc--ccC----HHHHHHHHHHhC---CeEEEEe
Q psy2300          97 FILMYDVTNEE---SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER--VIS----FERGKHLAESLG---VEFFETS  164 (221)
Q Consensus        97 vi~v~d~~~~~---s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~--~~~----~~~~~~~~~~~~---~~~~~~S  164 (221)
                      +|||+|+.+.+   .+..+...+..+.+.. ++..+.|++.|+|+....  ...    .+...+.+...+   +.++.+|
T Consensus        80 LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s-p~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TS  158 (232)
T PF04670_consen   80 LIYVFDAQSDDYDEDLAYLSDCIEALRQYS-PNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTS  158 (232)
T ss_dssp             EEEEEETT-STCHHHHHHHHHHHHHHHHHS-TT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-
T ss_pred             EEEEEEcccccHHHHHHHHHHHHHHHHHhC-CCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEecc
Confidence            99999998433   4444455555555554 789999999999984321  111    112233333445   7899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhh
Q psy2300         165 AKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      .++ +.+-+.+..+++.+..+.
T Consensus       159 I~D-~Sly~A~S~Ivq~LiP~~  179 (232)
T PF04670_consen  159 IWD-ESLYEAWSKIVQKLIPNL  179 (232)
T ss_dssp             TTS-THHHHHHHHHHHTTSTTH
T ss_pred             CcC-cHHHHHHHHHHHHHcccH
Confidence            998 567777776666665443

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.66  E-value=2.9e-15  Score=121.28  Aligned_cols=158  Identities=19%  Similarity=0.282  Sum_probs=116.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC--C-----C------ccccceeeeeEEEEEE-----eCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF--T-----S------AFVSTVGIDFKVKTVF-----RHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~--~-----~------~~~~~~~~~~~~~~~~-----~~~~~~~~~i~D~~g~   80 (221)
                      ++.-+..++-+-..|||||..|++...-  .     .      ......|+|.....+.     .+++.+.++++|||||
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            4556788999999999999999875321  0     0      1122234444433322     2456799999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC--
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV--  158 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  158 (221)
                      -.|.......+..|.+.++|+|++..-.-+.+.+.+..+..    +.-++-|+||+||+.+.....  ..+.-.-.|+  
T Consensus        87 VDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~Adperv--k~eIe~~iGid~  160 (603)
T COG0481          87 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPAADPERV--KQEIEDIIGIDA  160 (603)
T ss_pred             cceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCCCCHHHH--HHHHHHHhCCCc
Confidence            98888777788999999999999988777777777777765    789999999999987643222  2233334454  


Q ss_pred             -eEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         159 -EFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       159 -~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                       ..+.+||++|.||++++++|++.+
T Consensus       161 ~dav~~SAKtG~gI~~iLe~Iv~~i  185 (603)
T COG0481         161 SDAVLVSAKTGIGIEDVLEAIVEKI  185 (603)
T ss_pred             chheeEecccCCCHHHHHHHHHhhC
Confidence             478999999999999999887765

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.63  E-value=2.6e-15  Score=103.22  Aligned_cols=106  Identities=20%  Similarity=0.223  Sum_probs=67.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc---------cccchhhcc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY---------RTITTAYYR   92 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~---------~~~~~~~~~   92 (221)
                      +|+|+|.+|+|||||+|+|++... .....+..+.......+..++.  .+.++||||...-         .......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~--~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNK--KFILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTE--EEEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeecee--eEEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            689999999999999999998642 1122222222222233344444  4579999994321         111223348


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeC
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK  135 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK  135 (221)
                      .+|++++|+|++++.. .....++..+.    .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            8999999999887422 23334444443    48999999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>PRK12739 elongation factor G; Reviewed

Probab=99.63  E-value=7.8e-15  Score=128.96  Aligned_cols=120  Identities=18%  Similarity=0.095  Sum_probs=83.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCC----CCcc------------ccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSF----TSAF------------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~----~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +.+...+|+++|++++|||||+++|+...-    ....            ....+++.......+...+.++.++||||+
T Consensus         4 ~~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~   83 (691)
T PRK12739          4 PLEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGH   83 (691)
T ss_pred             CccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCH
Confidence            345678999999999999999999974210    0000            012244444444444445578999999998


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ..+...+...+..+|++++|+|+.+...-... ..+..+..   .+.|+++++||+|+..
T Consensus        84 ~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         84 VDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCCCC
Confidence            87777777889999999999999876433322 23333333   3789999999999853

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.63  E-value=1.8e-14  Score=108.17  Aligned_cols=161  Identities=13%  Similarity=0.170  Sum_probs=95.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeE--EEEEEeCCeEEEEEEEeCCCccccc--------cc---ch
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK--VKTVFRHDKRVKLQIWDTAGQERYR--------TI---TT   88 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~i~D~~g~~~~~--------~~---~~   88 (221)
                      ++|+++|.+|+|||||+|.+++...........+.+..  ......  .+..+.++||||-....        .+   ..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~--~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVW--DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEE--CCeEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            47999999999999999999988643322212222222  222223  33579999999943221        11   11


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccC------HHHHHHHHHHhCCeE
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVIS------FERGKHLAESLGVEF  160 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~  160 (221)
                      ....+.|++++|+++.+ .+-.+ ...+..+.....  .-.++++++|+.|......+.      ....+.+.+..+-.+
T Consensus        79 ~~~~g~~~illVi~~~~-~t~~d-~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~  156 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTEEE-EQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRY  156 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCHHH-HHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeE
Confidence            22467899999999886 22222 223333333221  125788999999964322111      133444555555555


Q ss_pred             EEEe-----cCCCCCHHHHHHHHHHHHHHhh
Q psy2300         161 FETS-----AKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       161 ~~~S-----a~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      +..+     +..+.++.+|++.|-+.+.+.-
T Consensus       157 ~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~~  187 (196)
T cd01852         157 VAFNNKAKGEEQEQQVKELLAKVESMVKENG  187 (196)
T ss_pred             EEEeCCCCcchhHHHHHHHHHHHHHHHHhcC
Confidence            5554     4456778888888877776643

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.62  E-value=7.6e-15  Score=117.35  Aligned_cols=154  Identities=20%  Similarity=0.212  Sum_probs=104.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTS---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++++|+|+..+|||||+-+|+.+.  ++.                           ......|.+.......+....
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k   84 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK   84 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC
Confidence            357999999999999999999987532  100                           111123556666666666667


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hHH---HHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SFT---SIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~---~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.++|+|+||+..|...+..-+.+||+.|+|+|+.+.+   +|.   ..+.......-  ..-..+||++||+|+.+-.+
T Consensus        85 ~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~t--lGi~~lIVavNKMD~v~wde  162 (428)
T COG5256          85 YNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLART--LGIKQLIVAVNKMDLVSWDE  162 (428)
T ss_pred             ceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHh--cCCceEEEEEEcccccccCH
Confidence            88999999999999888888899999999999998763   111   11121111111  12466899999999976433


Q ss_pred             cCHHHHH----HHHHHhC-----CeEEEEecCCCCCHHHH
Q psy2300         144 ISFERGK----HLAESLG-----VEFFETSAKDNVNVKGV  174 (221)
Q Consensus       144 ~~~~~~~----~~~~~~~-----~~~~~~Sa~~~~gi~~l  174 (221)
                      ..+++..    .+.+..+     ++++++|+..|.|+.+.
T Consensus       163 ~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         163 ERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            3333322    2333333     56999999999998653

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.60  E-value=3.1e-15  Score=109.16  Aligned_cols=117  Identities=20%  Similarity=0.335  Sum_probs=72.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe-CCeEEEEEEEeCCCcccccccchh---hccCCcEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR-HDKRVKLQIWDTAGQERYRTITTA---YYRGAMGF   97 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~~~~~---~~~~~d~v   97 (221)
                      -.|+++|+.|+|||+|..+|..+.....+.+. .   ......+ ....-.+.++|+|||.+.+.....   +...+.+|
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~-e---~n~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~I   79 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSM-E---NNIAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGI   79 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---S-S---EEEECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccc-c---CCceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEE
Confidence            46899999999999999999998643322221 1   1111212 123346899999999987753333   47889999


Q ss_pred             EEEEECCC-hhhHHHHHHHHHHHHhh---CCCCCcEEEEEeCCCCCCCc
Q psy2300          98 ILMYDVTN-EESFTSIQDWITQIKTY---SWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        98 i~v~d~~~-~~s~~~~~~~~~~l~~~---~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      |||+|.+. ...+.+..+++..+...   .....|++|+.||+|+..+.
T Consensus        80 IfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   80 IFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             EEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            99999974 44566666655544222   24689999999999996653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.60  E-value=1.2e-14  Score=127.74  Aligned_cols=121  Identities=17%  Similarity=0.081  Sum_probs=85.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCC----Cccc------------cceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFT----SAFV------------STVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~----~~~~------------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +.+...+|+|+|++++|||||+++|+...-.    ....            ...+++.......+...+.++.+|||||+
T Consensus         6 ~~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~   85 (689)
T TIGR00484         6 DLNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGH   85 (689)
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCC
Confidence            3445679999999999999999999742100    0000            12344444444444445678999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      ..+...+...+..+|++++|+|+.+........ ++..+..   .+.|+++++||+|+...
T Consensus        86 ~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~-~~~~~~~---~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        86 VDFTVEVERSLRVLDGAVAVLDAVGGVQPQSET-VWRQANR---YEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             cchhHHHHHHHHHhCEEEEEEeCCCCCChhHHH-HHHHHHH---cCCCEEEEEECCCCCCC
Confidence            887777788899999999999998865444332 3333333   37899999999999754

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.60  E-value=6.3e-15  Score=112.08  Aligned_cols=166  Identities=14%  Similarity=0.077  Sum_probs=107.9

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc--c-cceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------c
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF--V-STVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------R   82 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~   82 (221)
                      +.+......++|+++|..|+|||||||+|+.+...+..  . .+...++.....  ++  -.+.+||+||-+       +
T Consensus        31 ~~~l~~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~--~~--~~l~lwDtPG~gdg~~~D~~  106 (296)
T COG3596          31 MLQLTEKEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSY--DG--ENLVLWDTPGLGDGKDKDAE  106 (296)
T ss_pred             hhhhcccCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhc--cc--cceEEecCCCcccchhhhHH
Confidence            33445556899999999999999999999965532211  1 111112222222  22  358899999943       3


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC-------cccCHHHHHHHHH-
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE-------RVISFERGKHLAE-  154 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~-------~~~~~~~~~~~~~-  154 (221)
                      ++.....++...|++++++++.|+.--.+..-|...+...  -+.+.++++|.+|....       .......++.+.. 
T Consensus       107 ~r~~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~--~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~  184 (296)
T COG3596         107 HRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILG--LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEE  184 (296)
T ss_pred             HHHHHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhc--cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHH
Confidence            6667778899999999999999876444444444444333  25899999999997322       0011111111111 


Q ss_pred             -------Hh--CCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         155 -------SL--GVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       155 -------~~--~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                             ..  --+++..+...+.|++.+..++++.+..
T Consensus       185 k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~  223 (296)
T COG3596         185 KAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALPV  223 (296)
T ss_pred             HHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCcc
Confidence                   11  1378888999999999999999988753

>PRK00007 elongation factor G; Reviewed

Probab=99.60  E-value=3.4e-14  Score=124.90  Aligned_cols=118  Identities=19%  Similarity=0.133  Sum_probs=81.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC--CC--Ccc------------ccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS--FT--SAF------------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~--~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      .+...+|+|+|++++|||||+++|+...  ..  ...            ....+++.......+...+..+.++||||+.
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~   86 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHV   86 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcH
Confidence            4467899999999999999999997411  00  000            0123444444444444455789999999988


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      .+.......+..+|++++|+|+...-..+... .+..+...   +.|.++++||+|+.
T Consensus        87 ~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~~---~~p~iv~vNK~D~~  140 (693)
T PRK00007         87 DFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADKY---KVPRIAFVNKMDRT  140 (693)
T ss_pred             HHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHHc---CCCEEEEEECCCCC
Confidence            77655666788999999999988754333332 33333333   78999999999985

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.58  E-value=7.8e-14  Score=114.54  Aligned_cols=83  Identities=20%  Similarity=0.305  Sum_probs=54.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEE---------------------eC-CeEEEEEEEeCCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF---------------------RH-DKRVKLQIWDTAG   79 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~---------------------~~-~~~~~~~i~D~~g   79 (221)
                      ++|+++|.||+|||||+++|++..+.....+..+.+...-...                     .+ .....+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            6899999999999999999998875432222222111111111                     11 1236799999999


Q ss_pred             c----ccccccchhh---ccCCcEEEEEEECC
Q psy2300          80 Q----ERYRTITTAY---YRGAMGFILMYDVT  104 (221)
Q Consensus        80 ~----~~~~~~~~~~---~~~~d~vi~v~d~~  104 (221)
                      .    +....+...+   ++.+|++++|+|+.
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence            4    2223333344   88999999999986

>PRK09866 hypothetical protein; Provisional

Probab=99.58  E-value=1.8e-13  Score=115.73  Aligned_cols=109  Identities=16%  Similarity=0.153  Sum_probs=72.3

Q ss_pred             EEEEEEeCCCccc-----ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          70 VKLQIWDTAGQER-----YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        70 ~~~~i~D~~g~~~-----~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      .++.|.||||...     ........+..+|+|+||+|+.+..+..+. .....+.... .+.|+++|+||+|+.+....
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De-eIlk~Lkk~~-K~~PVILVVNKIDl~dreed  307 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE-EVREAILAVG-QSVPLYVLVNKFDQQDRNSD  307 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH-HHHHHHHhcC-CCCCEEEEEEcccCCCcccc
Confidence            3478899999543     122344578999999999999875433332 2344444331 23599999999998543222


Q ss_pred             CHHHHHHHHHH----hC---CeEEEEecCCCCCHHHHHHHHHH
Q psy2300         145 SFERGKHLAES----LG---VEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       145 ~~~~~~~~~~~----~~---~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ..+....+...    .+   ..+|++||+.|.|++.+++.|..
T Consensus       308 dkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        308 DADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             hHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            23444444321    12   26999999999999999998876

>PRK12740 elongation factor G; Reviewed

Probab=99.54  E-value=1.1e-13  Score=121.72  Aligned_cols=109  Identities=18%  Similarity=0.149  Sum_probs=74.8

Q ss_pred             EcCCCCCHHHHHHHHhcCCCC----Ccc------------ccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh
Q psy2300          27 IGNSSVGKTSFLFRYADDSFT----SAF------------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY   90 (221)
Q Consensus        27 vG~~~~GKSsli~~l~~~~~~----~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   90 (221)
                      +|++++|||||+++|+...-.    ...            ....+++.......+...++.+.+|||||+..+...+...
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~   80 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERA   80 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            699999999999999543210    000            0012333333333333455789999999998877777788


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      +..+|++++|+|+++.........| ..+..   .+.|+++|+||+|+.
T Consensus        81 l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~  125 (668)
T PRK12740         81 LRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            9999999999999886655443333 33333   378999999999975

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.51  E-value=2.3e-13  Score=110.12  Aligned_cols=157  Identities=20%  Similarity=0.229  Sum_probs=110.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC--CC------------CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS--FT------------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~--~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~   86 (221)
                      .-+|+++-+...|||||+..|+.+.  |.            .......|++.-.+...+.++++++.|.|||||..|.-.
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccch
Confidence            4579999999999999999998653  11            122334467777776667778899999999999999988


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-HHHHHHHHHHh-------CC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-FERGKHLAESL-------GV  158 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~-------~~  158 (221)
                      .+..+.-.|++++++|+.+.. +...+-   .+++....+.+-|||+||+|.+.++... .++..++....       ++
T Consensus        85 VERvl~MVDgvlLlVDA~EGp-MPQTrF---VlkKAl~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdF  160 (603)
T COG1217          85 VERVLSMVDGVLLLVDASEGP-MPQTRF---VLKKALALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDF  160 (603)
T ss_pred             hhhhhhhcceEEEEEEcccCC-CCchhh---hHHHHHHcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCC
Confidence            888999999999999998743 112222   1222222478889999999998765422 23344444433       57


Q ss_pred             eEEEEecCCC----------CCHHHHHHHHHHH
Q psy2300         159 EFFETSAKDN----------VNVKGVFERLVDI  181 (221)
Q Consensus       159 ~~~~~Sa~~~----------~gi~~l~~~i~~~  181 (221)
                      +++..|+..|          .++..||+.|++.
T Consensus       161 PivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~h  193 (603)
T COG1217         161 PIVYASARNGTASLDPEDEADDMAPLFETILDH  193 (603)
T ss_pred             cEEEeeccCceeccCccccccchhHHHHHHHHh
Confidence            8999999988          3455555554443

>KOG0090|consensus

Probab=99.51  E-value=2e-13  Score=99.93  Aligned_cols=155  Identities=18%  Similarity=0.231  Sum_probs=97.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc---CCcEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR---GAMGF   97 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~---~~d~v   97 (221)
                      .-.|+++|+.+||||+|..+|..+.+.+.+   ..++-.........  ..++++|.|||++.+.-...++.   .+-++
T Consensus        38 ~~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv---tSiepn~a~~r~gs--~~~~LVD~PGH~rlR~kl~e~~~~~~~akai  112 (238)
T KOG0090|consen   38 QNAVLLVGLSDSGKTSLFTQLITGSHRGTV---TSIEPNEATYRLGS--ENVTLVDLPGHSRLRRKLLEYLKHNYSAKAI  112 (238)
T ss_pred             CCcEEEEecCCCCceeeeeehhcCCccCee---eeeccceeeEeecC--cceEEEeCCCcHHHHHHHHHHccccccceeE
Confidence            356999999999999999999888543221   12222233332222  34899999999987765555555   68899


Q ss_pred             EEEEECCC-hhhHHHHHHHHHHHHhh---CCCCCcEEEEEeCCCCCCCcccC--HHHHHHHH------------------
Q psy2300          98 ILMYDVTN-EESFTSIQDWITQIKTY---SWDNAQVILVGNKCDMEDERVIS--FERGKHLA------------------  153 (221)
Q Consensus        98 i~v~d~~~-~~s~~~~~~~~~~l~~~---~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~------------------  153 (221)
                      +||+|..- ..-..+...++..+.-.   .....|+++..||.|+..+....  .+.++...                  
T Consensus       113 VFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~  192 (238)
T KOG0090|consen  113 VFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDI  192 (238)
T ss_pred             EEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccc
Confidence            99999652 33344444544443222   24678899999999984332110  00000000                  


Q ss_pred             ----------------H--HhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         154 ----------------E--SLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       154 ----------------~--~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                                      .  ...+.+.++|++++ +++++-+||.+.
T Consensus       193 ~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~  237 (238)
T KOG0090|consen  193 AKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREA  237 (238)
T ss_pred             cccccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHh
Confidence                            0  01234788999988 899999998765

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.51  E-value=1.3e-13  Score=92.43  Aligned_cols=136  Identities=22%  Similarity=0.255  Sum_probs=95.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc----chhhccCCcEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI----TTAYYRGAMGFI   98 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----~~~~~~~~d~vi   98 (221)
                      |++++|..|||||||.+.+.+..  ..+..|..+++..       .    -.+||||.---...    .......+|+++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~--~lykKTQAve~~d-------~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~   69 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGND--TLYKKTQAVEFND-------K----GDIDTPGEYFEHPRWYHALITTLQDADVII   69 (148)
T ss_pred             eeEEecccccCchhHHHHhhcch--hhhcccceeeccC-------c----cccCCchhhhhhhHHHHHHHHHhhccceee
Confidence            78999999999999999999876  3334444433321       1    14688984221222    233457899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|-+++++.+.  +..-+   ..  .-..|.|=|++|.|+.+..  +.+..++|...-|. ++|++|+.++.|+++++++
T Consensus        70 ~v~~and~~s~--f~p~f---~~--~~~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~  140 (148)
T COG4917          70 YVHAANDPESR--FPPGF---LD--IGVKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVDY  140 (148)
T ss_pred             eeecccCcccc--CCccc---cc--ccccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHHH
Confidence            99999987532  11100   11  1256699999999997543  45677888888886 8999999999999999998


Q ss_pred             HHH
Q psy2300         178 LVD  180 (221)
Q Consensus       178 i~~  180 (221)
                      |..
T Consensus       141 L~~  143 (148)
T COG4917         141 LAS  143 (148)
T ss_pred             HHh
Confidence            764

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.51  E-value=7.8e-13  Score=118.87  Aligned_cols=143  Identities=17%  Similarity=0.184  Sum_probs=90.9

Q ss_pred             CHHHHHHHHhcCCCCCccccceeeeeEEEE--EEeCCe-----------E-----EEEEEEeCCCcccccccchhhccCC
Q psy2300          33 GKTSFLFRYADDSFTSAFVSTVGIDFKVKT--VFRHDK-----------R-----VKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        33 GKSsli~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~-----------~-----~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      +||||+.++.+........-  |+|...-.  +..+..           .     -.+.||||||++.+..+....+..+
T Consensus       473 ~KTtLLD~iR~t~v~~~EaG--GITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~a  550 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKEAG--GITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLA  550 (1049)
T ss_pred             ccccHHHHHhCCCcccccCC--CceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccC
Confidence            39999999998775432222  22222221  111110           0     1279999999999988777778889


Q ss_pred             cEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC----------------HHHHH----H
Q psy2300          95 MGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS----------------FERGK----H  151 (221)
Q Consensus        95 d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~----------------~~~~~----~  151 (221)
                      |++++|+|+++   +++++.+.    .+..   .+.|+++++||+|+.......                ..+..    .
T Consensus       551 DivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~  623 (1049)
T PRK14845        551 DLAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYE  623 (1049)
T ss_pred             CEEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHH
Confidence            99999999987   44444332    2333   268999999999985321100                01110    0


Q ss_pred             H---HHHh---------------CCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         152 L---AESL---------------GVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       152 ~---~~~~---------------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      .   ...+               .++++++||++|+|+++|+++|......
T Consensus       624 v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~~  674 (1049)
T PRK14845        624 LIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQK  674 (1049)
T ss_pred             HhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhHH
Confidence            0   1111               2579999999999999999887655443

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.48  E-value=2.2e-13  Score=120.22  Aligned_cols=118  Identities=16%  Similarity=0.086  Sum_probs=80.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC---------------CCCCc---cccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD---------------SFTSA---FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~---------------~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +...+|+++|+.++|||||+++|+..               .+...   ...|+........+..++.++.+.+|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            46789999999999999999999752               11110   1112222222222335667789999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ..+.......+..+|++++|+|+.+.-..+....|. ....   .+.|+++++||+|...
T Consensus        97 ~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~~-~~~~---~~~p~ivviNKiD~~~  152 (720)
T TIGR00490        97 VDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVLR-QALK---ENVKPVLFINKVDRLI  152 (720)
T ss_pred             cccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHHH-HHHH---cCCCEEEEEEChhccc
Confidence            988777778899999999999998743222222222 2222   3678899999999853

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PTZ00258 GTP-binding protein; Provisional

Probab=99.46  E-value=1.7e-12  Score=105.71  Aligned_cols=86  Identities=20%  Similarity=0.185  Sum_probs=56.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccc-
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQER-   82 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~-   82 (221)
                      ...++|+++|.||+|||||+|+|++........|..+.......+.+...               ..++.++|+||-.. 
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~g   98 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKG   98 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcC
Confidence            46789999999999999999999887744333333333333333333221               23589999999421 


Q ss_pred             ------ccccchhhccCCcEEEEEEECC
Q psy2300          83 ------YRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        83 ------~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                            ........++.+|++++|+|+.
T Consensus        99 a~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         99 ASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence                  1111223467899999999973

>cd00066 G-alpha G protein alpha subunit

Probab=99.46  E-value=4.3e-12  Score=101.87  Aligned_cols=120  Identities=21%  Similarity=0.279  Sum_probs=86.4

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHhh-CCCCCcEEEEEeCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE----------ESFTSIQDWITQIKTY-SWDNAQVILVGNKC  136 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~  136 (221)
                      ..+.+.+||++|+...+..|..++.++++++||+|+++.          ..+.+....+..+... ...+.|++|++||.
T Consensus       159 ~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~  238 (317)
T cd00066         159 KNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNKK  238 (317)
T ss_pred             cceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccCh
Confidence            457789999999999999999999999999999999863          3454544544444332 23589999999999


Q ss_pred             CCCCC--------------c--ccCHHHHHHHHHH----------hCCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         137 DMEDE--------------R--VISFERGKHLAES----------LGVEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       137 Dl~~~--------------~--~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      |+-..              .  .-+.+.+..+...          ..+..+.++|.+..++..+|+.+.+.+.+...
T Consensus       239 D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~l  315 (317)
T cd00066         239 DLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNNL  315 (317)
T ss_pred             HHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHHh
Confidence            96210              0  1233343333322          12456789999999999999999998887653

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>smart00275 G_alpha G protein alpha subunit

Probab=99.45  E-value=6.5e-12  Score=101.62  Aligned_cols=119  Identities=19%  Similarity=0.286  Sum_probs=84.8

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCCh----------hhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE----------ESFTSIQDWITQIKTY-SWDNAQVILVGNKCD  137 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~D  137 (221)
                      .+.+.+||.+|+...+..|..++.++++++||+|+++-          ..+.+....+..+... ...+.|++|++||.|
T Consensus       183 ~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D  262 (342)
T smart00275      183 KLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNKID  262 (342)
T ss_pred             CeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEecHH
Confidence            35689999999999999999999999999999999862          3455555544444332 236899999999999


Q ss_pred             CCCC--------------c-ccCHHHHHHHHHH-----h------CCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         138 MEDE--------------R-VISFERGKHLAES-----L------GVEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       138 l~~~--------------~-~~~~~~~~~~~~~-----~------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      +...              . ..+.+.+..+...     .      .+.++.++|.+-.++..+|+.+.+.+.+...
T Consensus       263 ~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~l  338 (342)
T smart00275      263 LFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRNL  338 (342)
T ss_pred             hHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHHHH
Confidence            7210              0 0123333333221     1      1456788999999999999999998887654

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG1707|consensus

Probab=99.45  E-value=3e-12  Score=106.23  Aligned_cols=168  Identities=16%  Similarity=0.223  Sum_probs=122.7

Q ss_pred             hhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh
Q psy2300          11 KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY   90 (221)
Q Consensus        11 ~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   90 (221)
                      .+.+++.....+.+.|+|+.++|||.|++.++++.+......+....+.+......+..-.+.+.|.+-. ....+...-
T Consensus       415 d~~~~~~~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke  493 (625)
T KOG1707|consen  415 DRKKKQTDRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE  493 (625)
T ss_pred             hhccccccceeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc
Confidence            3445556667999999999999999999999999887766666666666666666666556777787644 233322222


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNV  169 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  169 (221)
                       ..||++.++||.+++.+|+.+......-...  ...|+++|++|+|+++..+...-.-.+++..+++ +.+.+|.+..-
T Consensus       494 -~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~  570 (625)
T KOG1707|consen  494 -AACDVACLVYDSSNPRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLS  570 (625)
T ss_pred             -ceeeeEEEecccCCchHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCC
Confidence             7799999999999999999887765554333  5899999999999976543222223788999997 45666666422


Q ss_pred             CHHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDIIC  183 (221)
Q Consensus       170 gi~~l~~~i~~~~~  183 (221)
                      . .++|..|....+
T Consensus       571 s-~~lf~kL~~~A~  583 (625)
T KOG1707|consen  571 S-NELFIKLATMAQ  583 (625)
T ss_pred             C-chHHHHHHHhhh
Confidence            2 788887777654

>KOG3905|consensus

Probab=99.45  E-value=2.6e-12  Score=99.85  Aligned_cols=161  Identities=18%  Similarity=0.291  Sum_probs=115.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe--EEEEEEEeCCCcccccccchhhccCC----
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK--RVKLQIWDTAGQERYRTITTAYYRGA----   94 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~----   94 (221)
                      --.|+|+|+.++||||||.+|-+..   .+-+..+..|....+.-+..  ..++.+|-..|...+..+....+...    
T Consensus        52 gk~VlvlGdn~sGKtsLi~klqg~e---~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~ae  128 (473)
T KOG3905|consen   52 GKNVLVLGDNGSGKTSLISKLQGSE---TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAE  128 (473)
T ss_pred             CCeEEEEccCCCchhHHHHHhhccc---ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccc
Confidence            3569999999999999999998876   33455566666665544332  36788898888776666655554432    


Q ss_pred             cEEEEEEECCCh-hhHHHHHHHHHHHHhhC--------------------------------------------------
Q psy2300          95 MGFILMYDVTNE-ESFTSIQDWITQIKTYS--------------------------------------------------  123 (221)
Q Consensus        95 d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~--------------------------------------------------  123 (221)
                      -++|++.|.++| .-++.+..|...+.++.                                                  
T Consensus       129 tlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~  208 (473)
T KOG3905|consen  129 TLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHV  208 (473)
T ss_pred             eEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccccc
Confidence            368889999988 56677777776653310                                                  


Q ss_pred             -----------CCCCcEEEEEeCCCCC----CCccc---C----HHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         124 -----------WDNAQVILVGNKCDME----DERVI---S----FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       124 -----------~~~~p~ivv~nK~Dl~----~~~~~---~----~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                                 .-++|++||.+|+|..    ...+.   .    ...++.||..+|..++.+|++...|++-+..+|.+.
T Consensus       209 llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr  288 (473)
T KOG3905|consen  209 LLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHR  288 (473)
T ss_pred             ccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHH
Confidence                       1167999999999972    21111   1    224678888899999999999999999999999888


Q ss_pred             HHH
Q psy2300         182 ICD  184 (221)
Q Consensus       182 ~~~  184 (221)
                      +..
T Consensus       289 ~yG  291 (473)
T KOG3905|consen  289 SYG  291 (473)
T ss_pred             hcC
Confidence            753

>KOG1144|consensus

Probab=99.44  E-value=5.2e-13  Score=113.20  Aligned_cols=165  Identities=20%  Similarity=0.222  Sum_probs=109.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc----cceeeeeEEEEE--------EeCCe----EEEEEEEeCCCcccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV----STVGIDFKVKTV--------FRHDK----RVKLQIWDTAGQERY   83 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~----~~~~~~~~~~~~--------~~~~~----~~~~~i~D~~g~~~~   83 (221)
                      +..-|+|+|+..+|||-|+..+.+..+.....    ..+|-+|.+..-        .-+..    ---+.++||||++.|
T Consensus       474 RSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsF  553 (1064)
T KOG1144|consen  474 RSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESF  553 (1064)
T ss_pred             CCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhh
Confidence            45668999999999999999998765433211    222334433320        00000    013678999999999


Q ss_pred             cccchhhccCCcEEEEEEECCCh---hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC-------CCccc------CHH
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNE---ESFTSIQDWITQIKTYSWDNAQVILVGNKCDME-------DERVI------SFE  147 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~---~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~-------~~~~~------~~~  147 (221)
                      ..++.....-||++|+|+|+.+.   .+++.+       .....++.||||.+||+|.-       +....      ...
T Consensus       554 tnlRsrgsslC~~aIlvvdImhGlepqtiESi-------~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~  626 (1064)
T KOG1144|consen  554 TNLRSRGSSLCDLAILVVDIMHGLEPQTIESI-------NLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKD  626 (1064)
T ss_pred             hhhhhccccccceEEEEeehhccCCcchhHHH-------HHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHH
Confidence            99999999999999999999863   333333       22233589999999999951       11000      000


Q ss_pred             HHHHHHHH----------hC---------------CeEEEEecCCCCCHHHHHHHHHHHHHHhhccccC
Q psy2300         148 RGKHLAES----------LG---------------VEFFETSAKDNVNVKGVFERLVDIICDKMSESLD  191 (221)
Q Consensus       148 ~~~~~~~~----------~~---------------~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~~  191 (221)
                      -..+|-.+          .|               +.++++||.+|+||.+|+-+|+++....|.+...
T Consensus       627 v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl~  695 (1064)
T KOG1144|consen  627 VQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKLA  695 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHHh
Confidence            01111111          01               3478999999999999999999999888765543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.44  E-value=8.4e-13  Score=102.18  Aligned_cols=96  Identities=21%  Similarity=0.298  Sum_probs=78.6

Q ss_pred             ccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCe
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVE  159 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  159 (221)
                      +++..+.+.++.++|.+++|+|+.++. ++..+..|+..+..   .+.|+++|+||+||.+......+....+ ...+++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH-HHCCCe
Confidence            567778888999999999999999887 89999999987754   4899999999999965544433344444 457889


Q ss_pred             EEEEecCCCCCHHHHHHHHHH
Q psy2300         160 FFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       160 ~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ++++||++|.|++++|+.+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999998764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR00101 ureG urease accessory protein UreG

Probab=99.44  E-value=2.6e-12  Score=96.35  Aligned_cols=102  Identities=17%  Similarity=0.097  Sum_probs=63.4

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      ....++++.|..-...... .  -+|.++.|+|+.+.++...  .+...+      ...-++++||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~-~--l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP-E--LADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccch-h--hhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            3456777777322222211 1  2678999999987655321  111111      223489999999964322233444


Q ss_pred             HHHHHH--hCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         150 KHLAES--LGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       150 ~~~~~~--~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .+..+.  .+.+++++|+++|+|++++|++|.+.+
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            444444  346899999999999999999998754

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.44  E-value=2.8e-12  Score=99.20  Aligned_cols=125  Identities=15%  Similarity=0.194  Sum_probs=72.4

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc--c-c---
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR--T-I---   86 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--~-~---   86 (221)
                      .-.+.....++|+|+|.+|+|||||+|+|++...... ....+.+...........+..+.+|||||-....  . .   
T Consensus        23 ~~~~~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v-~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~  101 (249)
T cd01853          23 KGKEELDFSLTILVLGKTGVGKSSTINSIFGERKAAT-SAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRK  101 (249)
T ss_pred             HhhhhccCCeEEEEECCCCCcHHHHHHHHhCCCCccc-CCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHH
Confidence            3344556789999999999999999999999764322 1111112222222222234678999999954331  0 0   


Q ss_pred             ----chhhcc--CCcEEEEEEECCCh-hhHHHHHHHHHHHHhhCCC--CCcEEEEEeCCCCC
Q psy2300          87 ----TTAYYR--GAMGFILMYDVTNE-ESFTSIQDWITQIKTYSWD--NAQVILVGNKCDME  139 (221)
Q Consensus        87 ----~~~~~~--~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~--~~p~ivv~nK~Dl~  139 (221)
                          ...++.  ..|++++|..++.. ....+ ...+..+......  -.++++|.||+|..
T Consensus       102 ~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~  162 (249)
T cd01853         102 ILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASS  162 (249)
T ss_pred             HHHHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccC
Confidence                112332  57888888766542 22221 1233333332211  25699999999974

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.42  E-value=5.3e-12  Score=95.54  Aligned_cols=154  Identities=14%  Similarity=0.111  Sum_probs=86.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC--------cc---ccce---eeeeEEEEEEe-----------------
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTS--------AF---VSTV---GIDFKVKTVFR-----------------   65 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~--------~~---~~~~---~~~~~~~~~~~-----------------   65 (221)
                      +......|+|+|++|+|||||++++.......        ..   ..+.   ........+..                 
T Consensus        18 ~~~~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~   97 (207)
T TIGR00073        18 DKHGLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALED   97 (207)
T ss_pred             hhcCcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHH
Confidence            34467889999999999999999987541100        00   0000   00001111100                 


Q ss_pred             -CCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          66 -HDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        66 -~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                       ......+.++|+.|.-...   ..+....+..+.|+|+.+.+...  ..   ....   .+.|.++++||+|+.+....
T Consensus        98 ~~~~~~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~--~~---~~~~---~~~a~iiv~NK~Dl~~~~~~  166 (207)
T TIGR00073        98 LPLDDIDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKP--LK---YPGM---FKEADLIVINKADLAEAVGF  166 (207)
T ss_pred             hccCCCCEEEEecCCCcCCC---cccccccCeEEEEEecCcccchh--hh---hHhH---HhhCCEEEEEHHHccccchh
Confidence             0012345667777621000   01112345556777776543211  11   1111   15778999999999654322


Q ss_pred             CHHHHHHHHHHhC--CeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         145 SFERGKHLAESLG--VEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       145 ~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ...+.....+..+  .+++++|+++|.|++++++++.+.
T Consensus       167 ~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       167 DVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3334444444443  789999999999999999998764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK13768 GTPase; Provisional

Probab=99.42  E-value=2.7e-12  Score=99.91  Aligned_cols=109  Identities=19%  Similarity=0.197  Sum_probs=68.6

Q ss_pred             EEEEEeCCCcccc---cccchhhcc---C--CcEEEEEEECCChhhHHHHH--HHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          71 KLQIWDTAGQERY---RTITTAYYR---G--AMGFILMYDVTNEESFTSIQ--DWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        71 ~~~i~D~~g~~~~---~~~~~~~~~---~--~d~vi~v~d~~~~~s~~~~~--~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      .+.+||+||+.+.   ...+..+++   .  ++++++|+|+.......+..  .|+...... ..+.|+++|+||+|+.+
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            5789999997542   333332322   2  89999999997543322222  222222211 13899999999999865


Q ss_pred             CcccCHHHHHH----------------------------HHHHhC--CeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         141 ERVISFERGKH----------------------------LAESLG--VEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       141 ~~~~~~~~~~~----------------------------~~~~~~--~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ..+.  +....                            ..+..+  .+++++|+++++|+++++++|.+.+
T Consensus       177 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        177 EEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             chhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            4322  11111                            112233  4789999999999999999998765

>KOG0410|consensus

Probab=99.40  E-value=4.6e-13  Score=103.97  Aligned_cols=163  Identities=12%  Similarity=0.101  Sum_probs=112.3

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc---------cc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ---------ER   82 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~---------~~   82 (221)
                      .+.+........|.|||..||||||||++|+.....+...-..+.+..........+. .+.+.||-|.         +.
T Consensus       169 ~r~gr~~~s~pviavVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~-~vlltDTvGFisdLP~~LvaA  247 (410)
T KOG0410|consen  169 RRVGREGESSPVIAVVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPSGN-FVLLTDTVGFISDLPIQLVAA  247 (410)
T ss_pred             hhhccccCCCceEEEEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCCCc-EEEEeechhhhhhCcHHHHHH
Confidence            3344555567789999999999999999999766555544444444555555555554 4778899883         22


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc----EEEEEeCCCCCCCcccCHHHHHHHHHHhCC
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ----VILVGNKCDMEDERVISFERGKHLAESLGV  158 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p----~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  158 (221)
                      |.... .....+|++++|.|+++|..-++....+.-+.....+..|    ++=|-||.|........        +.++ 
T Consensus       248 F~ATL-eeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~--------E~n~-  317 (410)
T KOG0410|consen  248 FQATL-EEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEE--------EKNL-  317 (410)
T ss_pred             HHHHH-HHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCcc--------ccCC-
Confidence            33322 2357899999999999998877777777777766433333    45566788875432211        1222 


Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         159 EFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       159 ~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                       .+.+||.+|.|+++++..+-..+..-+
T Consensus       318 -~v~isaltgdgl~el~~a~~~kv~~~t  344 (410)
T KOG0410|consen  318 -DVGISALTGDGLEELLKAEETKVASET  344 (410)
T ss_pred             -ccccccccCccHHHHHHHHHHHhhhhh
Confidence             678899999999999999888776553

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.40  E-value=8.1e-12  Score=104.19  Aligned_cols=163  Identities=14%  Similarity=0.260  Sum_probs=114.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe--EEEEEEEeCCCcccccccchhhccC----
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK--RVKLQIWDTAGQERYRTITTAYYRG----   93 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~----   93 (221)
                      ..-.|+|+|..++||||||.+|.+..   ...++.+.+|....+.-+..  ..++.+|.+.|...+..+....+..    
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~  100 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLP  100 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCccccc
Confidence            34689999999999999999987654   34466677777666543322  2578999998877777776665553    


Q ss_pred             CcEEEEEEECCChhhH-HHHHHHHHHHHhh-------------------------C------------------------
Q psy2300          94 AMGFILMYDVTNEESF-TSIQDWITQIKTY-------------------------S------------------------  123 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~-~~~~~~~~~l~~~-------------------------~------------------------  123 (221)
                      --+||+|+|.+.|-.+ +.+..|+..+..+                         .                        
T Consensus       101 ~t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~  180 (472)
T PF05783_consen  101 NTLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDE  180 (472)
T ss_pred             ceEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccc
Confidence            2468999999987433 4454455544220                         0                        


Q ss_pred             -------------CCCCcEEEEEeCCCCC----CCcc-------cCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         124 -------------WDNAQVILVGNKCDME----DERV-------ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       124 -------------~~~~p~ivv~nK~Dl~----~~~~-------~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                                   .-++|++||++|+|..    ....       .-...++.+|..+|..++.+|++...+++.|+.+|.
T Consensus       181 ~~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~  260 (472)
T PF05783_consen  181 SVLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYIL  260 (472)
T ss_pred             cccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHH
Confidence                         0047999999999962    1111       112336777888899999999999999999999988


Q ss_pred             HHHHHh
Q psy2300         180 DIICDK  185 (221)
Q Consensus       180 ~~~~~~  185 (221)
                      +.+...
T Consensus       261 h~l~~~  266 (472)
T PF05783_consen  261 HRLYGF  266 (472)
T ss_pred             HHhccC
Confidence            887654

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.40  E-value=3.8e-12  Score=112.69  Aligned_cols=117  Identities=18%  Similarity=0.130  Sum_probs=77.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC--CCcc---------c---cceeeeeEE--EEE--EeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF--TSAF---------V---STVGIDFKV--KTV--FRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~~~---------~---~~~~~~~~~--~~~--~~~~~~~~~~i~D~~g~   80 (221)
                      +...+|+++|+.++|||||+.+|+...-  ....         .   ...+++...  ..+  ..+..++.+.|+||||+
T Consensus        18 ~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~   97 (731)
T PRK07560         18 EQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGH   97 (731)
T ss_pred             hcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCc
Confidence            4567899999999999999999975320  0000         0   001222221  122  22445678999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ..|.......+..+|++++|+|+...-.......|.. ....   +.|.++++||+|+.
T Consensus        98 ~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~-~~~~---~~~~iv~iNK~D~~  152 (731)
T PRK07560         98 VDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQ-ALRE---RVKPVLFINKVDRL  152 (731)
T ss_pred             cChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHH-HHHc---CCCeEEEEECchhh
Confidence            8887777788999999999999887533322222332 2222   56889999999975

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.39  E-value=8.9e-12  Score=98.09  Aligned_cols=125  Identities=14%  Similarity=0.105  Sum_probs=70.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc-------chhh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI-------TTAY   90 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-------~~~~   90 (221)
                      ...++|+|+|.+|+||||++|+|++..... ......+.+........  .+..+.++||||.......       ...+
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~--~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~  113 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR--AGFTLNIIDTPGLIEGGYINDQAVNIIKRF  113 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE--CCeEEEEEECCCCCchHHHHHHHHHHHHHH
Confidence            568999999999999999999999876421 11111122222222222  3468999999995432211       1111


Q ss_pred             c--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC--CCCcEEEEEeCCCCCCCcccC
Q psy2300          91 Y--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDMEDERVIS  145 (221)
Q Consensus        91 ~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~p~ivv~nK~Dl~~~~~~~  145 (221)
                      +  ...|+++||..++.......-...+..+.....  --.+.+|++|+.|.......+
T Consensus       114 l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991       114 LLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             hhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence            1  268999999765432111111223333322211  125689999999975333333

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.39  E-value=6.7e-12  Score=98.62  Aligned_cols=149  Identities=24%  Similarity=0.267  Sum_probs=105.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC------------C-------------------ccccceeeeeEEEEEEeCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT------------S-------------------AFVSTVGIDFKVKTVFRHD   67 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~------------~-------------------~~~~~~~~~~~~~~~~~~~   67 (221)
                      ...++++.+|...=||||||-||+...-.            .                   +-+...|++..+....+.-
T Consensus         4 k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT   83 (431)
T COG2895           4 KSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST   83 (431)
T ss_pred             ccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc
Confidence            45789999999999999999998754210            0                   1112245666666555555


Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHH--HHHHHHhhCCCCCcEEEEEeCCCCCCCcccC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD--WITQIKTYSWDNAQVILVGNKCDMEDERVIS  145 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~--~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~  145 (221)
                      ....|.+-|||||+.|.+++..-...||+.|+++|+...- .+..+.  ++..+..    -..++|.+||+||.+-.+..
T Consensus        84 ~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv-l~QTrRHs~I~sLLG----IrhvvvAVNKmDLvdy~e~~  158 (431)
T COG2895          84 EKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV-LEQTRRHSFIASLLG----IRHVVVAVNKMDLVDYSEEV  158 (431)
T ss_pred             ccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh-HHHhHHHHHHHHHhC----CcEEEEEEeeecccccCHHH
Confidence            6678999999999999998888889999999999986432 222222  3333332    46788899999997754433


Q ss_pred             HH----HHHHHHHHhCC---eEEEEecCCCCCHH
Q psy2300         146 FE----RGKHLAESLGV---EFFETSAKDNVNVK  172 (221)
Q Consensus       146 ~~----~~~~~~~~~~~---~~~~~Sa~~~~gi~  172 (221)
                      ++    +...|+..+++   .++++||..|.|+-
T Consensus       159 F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         159 FEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            33    34556666664   68999999999874

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.38  E-value=5.2e-12  Score=95.88  Aligned_cols=161  Identities=16%  Similarity=0.179  Sum_probs=88.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccce--eeeeEEEEEEeCCeEEEEEEEeCCCcccc--------cccch---
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV--GIDFKVKTVFRHDKRVKLQIWDTAGQERY--------RTITT---   88 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~i~D~~g~~~~--------~~~~~---   88 (221)
                      ++|+|+|..|+||||++|.+++...........  +..........++  ..+.++||||-...        ..+..   
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            589999999999999999999987654432222  2233333444444  56899999993111        11111   


Q ss_pred             hhccCCcEEEEEEECCChhhHHHH--HHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-------HHHHHHHHHHhCCe
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSI--QDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-------FERGKHLAESLGVE  159 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~--~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-------~~~~~~~~~~~~~~  159 (221)
                      ....+.+++|||+.+.. -+-.+.  -.++..+.... --..++||.+..|......+.       ....+.+.+..+-.
T Consensus        79 ~~~~g~ha~llVi~~~r-~t~~~~~~l~~l~~~FG~~-~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLGR-FTEEDREVLELLQEIFGEE-IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             HTTT-ESEEEEEEETTB--SHHHHHHHHHHHHHHCGG-GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             hccCCCeEEEEEEecCc-chHHHHHHHHHHHHHccHH-HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCE
Confidence            12467899999999883 222222  22222222111 123578888888754432211       12244555556667


Q ss_pred             EEEEecC------CCCCHHHHHHHHHHHHHHhh
Q psy2300         160 FFETSAK------DNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       160 ~~~~Sa~------~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |+..+.+      ....+.+|++.|-+.+.+..
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            7776666      23457777777666666553

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.38  E-value=2.6e-11  Score=97.79  Aligned_cols=83  Identities=20%  Similarity=0.188  Sum_probs=53.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeE---------------EEEEEEeCCCcccc---
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR---------------VKLQIWDTAGQERY---   83 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~i~D~~g~~~~---   83 (221)
                      ++|+++|.||+|||||+|+|++........|..+.....-.+.+....               .++.+.|+||-..-   
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~   82 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   82 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCCh
Confidence            789999999999999999999987433333333322332233332211               35899999994211   


Q ss_pred             -ccc---chhhccCCcEEEEEEECC
Q psy2300          84 -RTI---TTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        84 -~~~---~~~~~~~~d~vi~v~d~~  104 (221)
                       ..+   ....++.+|++++|+|+.
T Consensus        83 g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         83 GEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHHHHHhCCEEEEEEeCC
Confidence             111   222467899999999974

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.37  E-value=4.6e-11  Score=96.65  Aligned_cols=157  Identities=15%  Similarity=0.213  Sum_probs=95.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc--------------ccee---eeeEEEE-------EEe-CCeEEEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV--------------STVG---IDFKVKT-------VFR-HDKRVKLQI   74 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~--------------~~~~---~~~~~~~-------~~~-~~~~~~~~i   74 (221)
                      ..+.|+|+|+.++||||||++|.+..+.+...              +..|   +|..++.       +.. ++-...+.+
T Consensus        16 G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~Vrl   95 (492)
T TIGR02836        16 GDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRL   95 (492)
T ss_pred             CcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEE
Confidence            46899999999999999999999983322211              2223   3333222       222 344578999


Q ss_pred             EeCCCcc--------cccc-----c----------------chhhcc-CCcEEEEEE-ECC--C--hhhHHHH-HHHHHH
Q psy2300          75 WDTAGQE--------RYRT-----I----------------TTAYYR-GAMGFILMY-DVT--N--EESFTSI-QDWITQ  118 (221)
Q Consensus        75 ~D~~g~~--------~~~~-----~----------------~~~~~~-~~d~vi~v~-d~~--~--~~s~~~~-~~~~~~  118 (221)
                      +||+|-.        +...     .                +...+. ++|+.|+|. |.+  +  ++.+... ..++..
T Consensus        96 IDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~e  175 (492)
T TIGR02836        96 VDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEE  175 (492)
T ss_pred             EECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHH
Confidence            9999821        1111     0                223344 899999988 764  1  2233333 347777


Q ss_pred             HHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         119 IKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       119 l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++..   ++|+++++||.|-....  ..+....+...++.+++.+|+.. ..-+++..-+.+.+
T Consensus       176 Lk~~---~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~-l~~~DI~~il~~vL  233 (492)
T TIGR02836       176 LKEL---NKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVES-MRESDILSVLEEVL  233 (492)
T ss_pred             HHhc---CCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHH-cCHHHHHHHHHHHH
Confidence            7665   89999999999942211  33445566677788888887753 33344333333333

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>cd01882 BMS1 Bms1

Probab=99.37  E-value=2.6e-11  Score=92.88  Aligned_cols=140  Identities=15%  Similarity=0.146  Sum_probs=83.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      .....|+|+|.+|+|||||++.+....-........+. +   .+.. ..+.++.++|+||.-  .. ....+..+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i---~i~~-~~~~~i~~vDtPg~~--~~-~l~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-I---TVVT-GKKRRLTFIECPNDI--NA-MIDIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-E---EEEe-cCCceEEEEeCCchH--HH-HHHHHHhcCEEE
Confidence            34578999999999999999999875321111111121 1   1111 234578899999853  22 223468899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcE-EEEEeCCCCCCCcccC---HHHHHH-HHHH--hCCeEEEEecCCCCC
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQV-ILVGNKCDMEDERVIS---FERGKH-LAES--LGVEFFETSAKDNVN  170 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~-ivv~nK~Dl~~~~~~~---~~~~~~-~~~~--~~~~~~~~Sa~~~~g  170 (221)
                      +|+|+........ ..++..+...   +.|. ++|+||+|+.+....-   .+.++. +...  .+.+++.+||+++..
T Consensus       109 lviDa~~~~~~~~-~~i~~~l~~~---g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         109 LLIDASFGFEMET-FEFLNILQVH---GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             EEEecCcCCCHHH-HHHHHHHHHc---CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            9999986443322 2333444333   5774 5599999985432110   111111 2211  235899999998844

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>KOG1532|consensus

Probab=99.37  E-value=1.3e-11  Score=94.01  Aligned_cols=114  Identities=16%  Similarity=0.190  Sum_probs=67.8

Q ss_pred             EEEEEEeCCCccc-cc-----cc-chhh-ccCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          70 VKLQIWDTAGQER-YR-----TI-TTAY-YRGAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        70 ~~~~i~D~~g~~~-~~-----~~-~~~~-~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      +.+.++||||+-+ |.     .+ .+.+ ....-++++|+|...   +..|  +.+.+....-......|+|++.||+|+
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tF--MSNMlYAcSilyktklp~ivvfNK~Dv  193 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTF--MSNMLYACSILYKTKLPFIVVFNKTDV  193 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhH--HHHHHHHHHHHHhccCCeEEEEecccc
Confidence            4578999999642 21     11 1111 234567888888543   4333  334333332222358999999999998


Q ss_pred             CCCc----cc-CHHHHHHHHHH---------------------hCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         139 EDER----VI-SFERGKHLAES---------------------LGVEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       139 ~~~~----~~-~~~~~~~~~~~---------------------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      .+..    .. +++..++..+.                     .++..+.+|+.+|.|++++|..+-+.+-++
T Consensus       194 ~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  194 SDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             cccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            5531    11 11111111111                     136689999999999999999988776433

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.36  E-value=3.5e-12  Score=114.28  Aligned_cols=119  Identities=15%  Similarity=0.144  Sum_probs=81.5

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCC--C------------ccccceeeeeE--EEEEEe--------------C
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFT--S------------AFVSTVGIDFK--VKTVFR--------------H   66 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~--~------------~~~~~~~~~~~--~~~~~~--------------~   66 (221)
                      ..+...+|+|+|+.++|||||+.+|+...-.  .            ......+++..  ...+..              .
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            3456789999999999999999999754310  0            00001122222  222222              1


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ...+.+.++||||+..|.......++.+|++|+|+|+.++-......-|... ..   .+.|+++++||+|+.
T Consensus        95 ~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~-~~---~~~p~i~~iNK~D~~  163 (843)
T PLN00116         95 GNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQA-LG---ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHH-HH---CCCCEEEEEECCccc
Confidence            2357889999999999888778888999999999999876443333334333 33   379999999999985

>KOG0458|consensus

Probab=99.36  E-value=1.5e-11  Score=102.27  Aligned_cols=156  Identities=19%  Similarity=0.224  Sum_probs=106.0

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCC-----------------------------CCccccceeeeeEEEEEEeC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSF-----------------------------TSAFVSTVGIDFKVKTVFRH   66 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~   66 (221)
                      .+....+.++|+|+.++|||||+.+++...-                             ....+...|++..+....++
T Consensus       172 ~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fe  251 (603)
T KOG0458|consen  172 SDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFE  251 (603)
T ss_pred             cCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEe
Confidence            3444689999999999999999999864210                             01222334666677777777


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hHH---HHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SFT---SIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~---~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      .....+++.|+||+..|...+..-...+|+.++|+|++-.+   +|+   ..+.....+...  .-..++|++||+|+.+
T Consensus       252 s~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L--gi~qlivaiNKmD~V~  329 (603)
T KOG0458|consen  252 SKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL--GISQLIVAINKMDLVS  329 (603)
T ss_pred             cCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc--CcceEEEEeecccccC
Confidence            77788999999999999988888889999999999987421   121   122222222222  2567899999999865


Q ss_pred             CcccCHHHH----HHHH-HHh-----CCeEEEEecCCCCCHHH
Q psy2300         141 ERVISFERG----KHLA-ESL-----GVEFFETSAKDNVNVKG  173 (221)
Q Consensus       141 ~~~~~~~~~----~~~~-~~~-----~~~~~~~Sa~~~~gi~~  173 (221)
                      =.+-.++++    ..|. +..     ++.+++||+..|+|+-.
T Consensus       330 Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k  372 (603)
T KOG0458|consen  330 WSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIK  372 (603)
T ss_pred             ccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCcccc
Confidence            333333332    2333 222     25799999999999754

>PTZ00416 elongation factor 2; Provisional

Probab=99.35  E-value=6.9e-12  Score=112.26  Aligned_cols=118  Identities=17%  Similarity=0.190  Sum_probs=79.4

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCC--CCc------------cccceeeeeE--EEEEEeC--------CeEEEEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSF--TSA------------FVSTVGIDFK--VKTVFRH--------DKRVKLQ   73 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~~------------~~~~~~~~~~--~~~~~~~--------~~~~~~~   73 (221)
                      .+...+|+++|+.++|||||+++|+...-  ...            .....+++..  ...+...        +....+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            35667999999999999999999986321  000            0001122222  1222222        1256799


Q ss_pred             EEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          74 IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        74 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ++||||+..+.......++.+|++|+|+|+.+.-..... ..+..+..   .+.|+++++||+|+.
T Consensus        96 liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHH---cCCCEEEEEEChhhh
Confidence            999999988877777888999999999999875433332 22333333   268999999999985

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.35  E-value=1.7e-11  Score=84.81  Aligned_cols=114  Identities=25%  Similarity=0.371  Sum_probs=79.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccc-cceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFV-STVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      +||+++|..|+|||+|+.++....+...+. ++.+                +..+           ...+.+.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~----------------~~~~-----------~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG----------------IDVY-----------DPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh----------------hhhc-----------cccccCCCCEEEEE
Confidence            589999999999999999998777644332 3322                1122           23356778999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      ++.++..++..+  |...+........|.++++||.|+.+......++.        ..++++|+++|.|+.
T Consensus        54 ~~~~~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~--------~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEG--------LEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHH--------HHHHHHhCCCcchhh
Confidence            999999988765  76666554445688999999999844333332222        245567888988874

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.35  E-value=3.3e-11  Score=96.57  Aligned_cols=104  Identities=14%  Similarity=0.128  Sum_probs=66.0

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CH
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SF  146 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~  146 (221)
                      ++.+.|+||+|...-.   ......+|.+++|.+...++.+..+..   .+.     ...-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~---~~i~~~aD~vlvv~~p~~gd~iq~~k~---gi~-----E~aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSE---TAVAGMVDFFLLLQLPGAGDELQGIKK---GIM-----ELADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccch---hHHHHhCCEEEEEecCCchHHHHHHHh---hhh-----hhhheEEeehhcccchhHHHHHH
Confidence            4678899999965221   224677999999987544444433321   111     2234899999998653221  11


Q ss_pred             HHHHHHHHH-------hCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         147 ERGKHLAES-------LGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       147 ~~~~~~~~~-------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .+.......       ...+++.+||+++.|++++++.|.+.+.
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            222222221       1247999999999999999999998765

>KOG0461|consensus

Probab=99.32  E-value=5.7e-11  Score=93.26  Aligned_cols=159  Identities=21%  Similarity=0.247  Sum_probs=93.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC----CCCccccc-eeeeeE--EEEEE-------eCCeEEEEEEEeCCCcccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS----FTSAFVST-VGIDFK--VKTVF-------RHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~----~~~~~~~~-~~~~~~--~~~~~-------~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      ..+++.++|+..+|||||.+++..-.    |+.+..++ .+++.+  -..+.       -.++..++++.|+||+...-+
T Consensus         6 ~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIR   85 (522)
T KOG0461|consen    6 SNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIR   85 (522)
T ss_pred             ceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHH
Confidence            45999999999999999999997542    22221111 122222  11111       134457889999999986655


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCC-CC-CcccCHHHH-HHHHHH---h--
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDM-ED-ERVISFERG-KHLAES---L--  156 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl-~~-~~~~~~~~~-~~~~~~---~--  156 (221)
                      .......-.|..++|+|+.....-+.++- .+..+.     -...+||+||.|. ++ .+....++. .+..+.   .  
T Consensus        86 tiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~-----c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f  160 (522)
T KOG0461|consen   86 TIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELL-----CKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGF  160 (522)
T ss_pred             HHHhhhheeeeeeEEEehhcccccccchhhhhhhhh-----ccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCc
Confidence            44444556788999999986543333322 222222     3456777888876 33 222111221 111111   1  


Q ss_pred             --CCeEEEEecCCC----CCHHHHHHHHHHHHH
Q psy2300         157 --GVEFFETSAKDN----VNVKGVFERLVDIIC  183 (221)
Q Consensus       157 --~~~~~~~Sa~~~----~gi~~l~~~i~~~~~  183 (221)
                        +.|++++|+..|    +++.++.+.|-+.+.
T Consensus       161 ~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if  193 (522)
T KOG0461|consen  161 DGNSPIVEVSAADGYFKEEMIQELKEALESRIF  193 (522)
T ss_pred             CCCCceeEEecCCCccchhHHHHHHHHHHHhhc
Confidence              268999999999    666666665555543

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.32  E-value=5e-12  Score=98.18  Aligned_cols=163  Identities=13%  Similarity=0.183  Sum_probs=107.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCC---ccccceee--ee-----------------EEEE-EEeC----CeEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTS---AFVSTVGI--DF-----------------KVKT-VFRH----DKRVK   71 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~---~~~~~~~~--~~-----------------~~~~-~~~~----~~~~~   71 (221)
                      ...++|.++|+...|||||.++|++--...   +...-+++  .|                 .... ....    .--.+
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            357999999999999999999998742211   10000000  00                 0000 0000    01246


Q ss_pred             EEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc--ccCHHHH
Q psy2300          72 LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER--VISFERG  149 (221)
Q Consensus        72 ~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~~~  149 (221)
                      +.|.|.|||+-....+..-..-.|+.++|++++.+-.-.+....+..+.-.  .-..++++-||.|+...+  ..++++.
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi--gik~iiIvQNKIDlV~~E~AlE~y~qI  165 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII--GIKNIIIVQNKIDLVSRERALENYEQI  165 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh--ccceEEEEecccceecHHHHHHHHHHH
Confidence            889999999977666655566689999999999743333344444445444  256789999999995532  2344555


Q ss_pred             HHHHHHh---CCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         150 KHLAESL---GVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       150 ~~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ++|.+..   +.+++++||..+.||+.++++|.+.+-
T Consensus       166 k~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ip  202 (415)
T COG5257         166 KEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIP  202 (415)
T ss_pred             HHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCC
Confidence            6665543   579999999999999999998877764

>KOG0705|consensus

Probab=99.29  E-value=8.3e-12  Score=102.92  Aligned_cols=174  Identities=25%  Similarity=0.413  Sum_probs=130.5

Q ss_pred             CCcCcchhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300           2 AGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      |++++++|...+.-.+    +|+.|||..++|||+|+.+++.+.|.....+.-+  .+.+.+.+++....+.+.|.+|..
T Consensus        15 afvnsqewtlsrsipe----lk~givg~~~sgktalvhr~ltgty~~~e~~e~~--~~kkE~vv~gqs~lLlirdeg~~~   88 (749)
T KOG0705|consen   15 AFVNSQEWTLSRSIPE----LKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGG--RFKKEVVVDGQSHLLLIRDEGGHP   88 (749)
T ss_pred             hhccccceeeecccch----hheeeeecccCCceeeeeeeccceeccccCCcCc--cceeeEEeeccceEeeeecccCCc
Confidence            5788999998876544    9999999999999999999999988665444333  555666677777788889988732


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCC--CCcccCHHHHHHHH-HHhC
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDME--DERVISFERGKHLA-ESLG  157 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~-~~~~  157 (221)
                           ...|...+|++||||...+..+|+.+..+...+..+. ....|+++++++.-..  ..+.+...+.+.++ ....
T Consensus        89 -----~aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~kr  163 (749)
T KOG0705|consen   89 -----DAQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKR  163 (749)
T ss_pred             -----hhhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCc
Confidence                 3346788999999999999999999888777765444 3467788888765432  22333334444444 3445


Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         158 VEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       158 ~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      +.+|++++.+|.++...|..+..++....
T Consensus       164 csy~et~atyGlnv~rvf~~~~~k~i~~~  192 (749)
T KOG0705|consen  164 CSYYETCATYGLNVERVFQEVAQKIVQLR  192 (749)
T ss_pred             cceeecchhhhhhHHHHHHHHHHHHHHHH
Confidence            78999999999999999999998876553

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.29  E-value=5.2e-11  Score=87.07  Aligned_cols=62  Identities=23%  Similarity=0.261  Sum_probs=44.3

Q ss_pred             EEEEeCCCcc----cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          72 LQIWDTAGQE----RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        72 ~~i~D~~g~~----~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                      +.|+|+||-.    ....++..++..+|++|+|.++.....-.....+.......   ...+++|.||.
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            7899999953    23355777889999999999999865555555555555443   45599999984

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>KOG0082|consensus

Probab=99.28  E-value=3e-10  Score=90.69  Aligned_cols=121  Identities=21%  Similarity=0.268  Sum_probs=83.6

Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh----------hHHHHHHHHHHHHhhC-CCCCcEEEEEeC
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE----------SFTSIQDWITQIKTYS-WDNAQVILVGNK  135 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~----------s~~~~~~~~~~l~~~~-~~~~p~ivv~nK  135 (221)
                      ..+..+.++|.||+...+.-|...+.++++||||+++++-+          .+.+...++..+-... -.+.++++++||
T Consensus       192 ~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK  271 (354)
T KOG0082|consen  192 IKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILFLNK  271 (354)
T ss_pred             eCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEEeec
Confidence            34478999999999988888999999999999999987521          2222233444442222 357999999999


Q ss_pred             CCCCCC--------------cc-cCHHHHHHHHHH----------hCCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         136 CDMEDE--------------RV-ISFERGKHLAES----------LGVEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       136 ~Dl~~~--------------~~-~~~~~~~~~~~~----------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      .|+-..              .. -..+++..+...          ..+.++.+.|++-.+|+.+|.++.+.+.+...
T Consensus       272 ~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~nl  348 (354)
T KOG0082|consen  272 KDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNNL  348 (354)
T ss_pred             HHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHHH
Confidence            997211              11 123333333321          12456788999999999999999998887654

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.28  E-value=6.1e-12  Score=96.77  Aligned_cols=110  Identities=18%  Similarity=0.247  Sum_probs=57.0

Q ss_pred             EEEEEeCCCcccccccchhhc--------cCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          71 KLQIWDTAGQERYRTITTAYY--------RGAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~--------~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      .+.++|||||-+.-..+....        ...-++++++|+..   +..|  +..++..+.-...-+.|.|.|+||+|+.
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f--~s~~L~s~s~~~~~~lP~vnvlsK~Dl~  169 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKF--VSSLLLSLSIMLRLELPHVNVLSKIDLL  169 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHH--HHHHHHHHHHHHHHTSEEEEEE--GGGS
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhH--HHHHHHHHHHHhhCCCCEEEeeeccCcc
Confidence            478999999876654444332        34567889999763   3333  2333333221111289999999999996


Q ss_pred             CCcc---c----C------------HHHHHHHHHHh---C-C-eEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         140 DERV---I----S------------FERGKHLAESL---G-V-EFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       140 ~~~~---~----~------------~~~~~~~~~~~---~-~-~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ....   .    .            ......++...   + . .++++|+++++|+.+++..+-+.+
T Consensus       170 ~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  170 SKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             -HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             cchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            5220   0    0            00011111111   2 3 799999999999999998876654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd01900 YchF YchF subfamily

Probab=99.27  E-value=6.3e-11  Score=92.62  Aligned_cols=81  Identities=17%  Similarity=0.146  Sum_probs=52.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCcccc----c
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQERY----R   84 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~----~   84 (221)
                      |+++|.||+|||||+|+|++........|..+.......+.+...               ...+.++|+||-..-    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            589999999999999999998754433343333333333333322               135899999993211    1


Q ss_pred             cc---chhhccCCcEEEEEEECC
Q psy2300          85 TI---TTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        85 ~~---~~~~~~~~d~vi~v~d~~  104 (221)
                      .+   ....++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            11   222467899999999863

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.26  E-value=8.4e-11  Score=95.15  Aligned_cols=154  Identities=18%  Similarity=0.188  Sum_probs=108.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      -|+..|+-..|||||++.+.+...... .....|++.+..-...+..+..+.|+|.||++.+-......+...|..++|+
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV   81 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVV   81 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEE
Confidence            478899999999999999998763221 1223355555555555555568999999999998887877888999999999


Q ss_pred             ECCCh---hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH---hCCeEEEEecCCCCCHHHHH
Q psy2300         102 DVTNE---ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES---LGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       102 d~~~~---~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++.   ++.+++    ..+...  .....++|+||+|..+...+. +..++....   .+.+++.+|+++|+||++|.
T Consensus        82 ~~deGl~~qtgEhL----~iLdll--gi~~giivltk~D~~d~~r~e-~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk  154 (447)
T COG3276          82 AADEGLMAQTGEHL----LILDLL--GIKNGIIVLTKADRVDEARIE-QKIKQILADLSLANAKIFKTSAKTGRGIEELK  154 (447)
T ss_pred             eCccCcchhhHHHH----HHHHhc--CCCceEEEEeccccccHHHHH-HHHHHHHhhcccccccccccccccCCCHHHHH
Confidence            99753   333333    333333  245569999999986643221 122222222   24678999999999999999


Q ss_pred             HHHHHHHH
Q psy2300         176 ERLVDIIC  183 (221)
Q Consensus       176 ~~i~~~~~  183 (221)
                      +.|.+...
T Consensus       155 ~~l~~L~~  162 (447)
T COG3276         155 NELIDLLE  162 (447)
T ss_pred             HHHHHhhh
Confidence            99999874

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.26  E-value=3.9e-11  Score=96.89  Aligned_cols=158  Identities=16%  Similarity=0.163  Sum_probs=77.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc-ccc--eeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc-----hhh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF-VST--VGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT-----TAY   90 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~-~~~--~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-----~~~   90 (221)
                      ...++|+|+|.+|+|||||||+|.+-.-..+. .++  ..++.....+..... -++.+||+||........     ..-
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~-pnv~lWDlPG~gt~~f~~~~Yl~~~~  111 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKF-PNVTLWDLPGIGTPNFPPEEYLKEVK  111 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCC-CCCeEEeCCCCCCCCCCHHHHHHHcc
Confidence            35699999999999999999999764321111 111  122233333332221 258899999954322222     223


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCC-------CCcccCH----HHHHHHHHH---
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDME-------DERVISF----ERGKHLAES---  155 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~----~~~~~~~~~---  155 (221)
                      +...|.+|++.+.    .|..... +...+.+.   ++|+++|-+|+|..       ..+..+.    ++.++.+..   
T Consensus       112 ~~~yD~fiii~s~----rf~~ndv~La~~i~~~---gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~  184 (376)
T PF05049_consen  112 FYRYDFFIIISSE----RFTENDVQLAKEIQRM---GKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQ  184 (376)
T ss_dssp             GGG-SEEEEEESS----S--HHHHHHHHHHHHT---T-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHH
T ss_pred             ccccCEEEEEeCC----CCchhhHHHHHHHHHc---CCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHH
Confidence            5667888887763    2333322 33444544   89999999999951       1111222    222322222   


Q ss_pred             -hC---CeEEEEecCCCC--CHHHHHHHHHHHHHH
Q psy2300         156 -LG---VEFFETSAKDNV--NVKGVFERLVDIICD  184 (221)
Q Consensus       156 -~~---~~~~~~Sa~~~~--gi~~l~~~i~~~~~~  184 (221)
                       .+   -++|-+|..+-.  ++..|.+.|.+-+-.
T Consensus       185 k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~  219 (376)
T PF05049_consen  185 KAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPA  219 (376)
T ss_dssp             CTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-G
T ss_pred             HcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHH
Confidence             23   368999998764  466777776665543

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.22  E-value=8.6e-11  Score=93.78  Aligned_cols=104  Identities=15%  Similarity=0.126  Sum_probs=64.2

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHH
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFER  148 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  148 (221)
                      ++.+.|+||+|....   ....+..+|.++++....   +..++..+...+     .+.|.++++||+|+..........
T Consensus       126 g~D~viidT~G~~~~---e~~i~~~aD~i~vv~~~~---~~~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQS---EVDIANMADTFVVVTIPG---TGDDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchh---hhHHHHhhceEEEEecCC---ccHHHHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            467889999985321   223566788888885433   223333333222     267789999999996543211100


Q ss_pred             ------HHHHHHH---hCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         149 ------GKHLAES---LGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       149 ------~~~~~~~---~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                            ...+...   ...+++++||+++.|+++++++|.+.+.
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence                  0111111   1236899999999999999999988643

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.22  E-value=5.7e-10  Score=87.91  Aligned_cols=139  Identities=18%  Similarity=0.260  Sum_probs=75.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCcc----------ccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--------
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAF----------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--------   82 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------   82 (221)
                      .++|+|+|..|+|||||||.|++.......          ..+..+......+.-++..+.++++||||...        
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~   83 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCW   83 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhh
Confidence            589999999999999999999987543321          12233344444555566778999999999110        


Q ss_pred             ----------c--------cccc-hhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          83 ----------Y--------RTIT-TAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        83 ----------~--------~~~~-~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                                +        ...+ ...=...|++||+++.+... .-.++ ..+..+..    .+++|-|+.|+|.-...
T Consensus        84 ~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di-~~mk~Ls~----~vNvIPvIaKaD~lt~~  158 (281)
T PF00735_consen   84 EPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDI-EFMKRLSK----RVNVIPVIAKADTLTPE  158 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHH-HHHHHHTT----TSEEEEEESTGGGS-HH
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHH-HHHHHhcc----cccEEeEEecccccCHH
Confidence                      0        0000 01113578999999986532 11222 24444443    68899999999975433


Q ss_pred             ccC--HHHHHHHHHHhCCeEEEEe
Q psy2300         143 VIS--FERGKHLAESLGVEFFETS  164 (221)
Q Consensus       143 ~~~--~~~~~~~~~~~~~~~~~~S  164 (221)
                      ++.  ...+......+++.+|...
T Consensus       159 el~~~k~~i~~~l~~~~I~~f~f~  182 (281)
T PF00735_consen  159 ELQAFKQRIREDLEENNIKIFDFP  182 (281)
T ss_dssp             HHHHHHHHHHHHHHHTT--S----
T ss_pred             HHHHHHHHHHHHHHHcCceeeccc
Confidence            322  1223333455677666533

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>KOG1486|consensus

Probab=99.21  E-value=1.1e-09  Score=82.71  Aligned_cols=155  Identities=19%  Similarity=0.179  Sum_probs=100.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------cccccchhhcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------RYRTITTAYYR   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~   92 (221)
                      .-.+|+++|.|++|||||+..+..-..........+.+.-+-.+..  .+..+++.|.||.-       ...+......+
T Consensus        61 GdaRValIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y--~ga~IQllDLPGIieGAsqgkGRGRQviavAr  138 (364)
T KOG1486|consen   61 GDARVALIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHY--NGANIQLLDLPGIIEGASQGKGRGRQVIAVAR  138 (364)
T ss_pred             CCeEEEEecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEe--cCceEEEecCcccccccccCCCCCceEEEEee
Confidence            3578999999999999999999876643333333333444444444  44678999999932       11233445678


Q ss_pred             CCcEEEEEEECCChhhHH-HHHHHHHHHHhhCCC----------------------------------------------
Q psy2300          93 GAMGFILMYDVTNEESFT-SIQDWITQIKTYSWD----------------------------------------------  125 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~-~~~~~~~~l~~~~~~----------------------------------------------  125 (221)
                      .+|+++.|.|++..+.-. -+...+..+.-...+                                              
T Consensus       139 taDlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl  218 (364)
T KOG1486|consen  139 TADLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVL  218 (364)
T ss_pred             cccEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEE
Confidence            899999999998644222 222223322110000                                              


Q ss_pred             -------------------CCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         126 -------------------NAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       126 -------------------~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                                         -.+++.|-||+|.     ++.++..++++..+.  +.+|+-...|++.+++.|.+.+.
T Consensus       219 ~ReD~t~DdfIDvi~gnr~Y~~ClYvYnKID~-----vs~eevdrlAr~Pns--vViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  219 FREDCTVDDFIDVIEGNRVYIKCLYVYNKIDQ-----VSIEEVDRLARQPNS--VVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             EecCCChHHHHHHHhccceEEEEEEEeeccce-----ecHHHHHHHhcCCCc--EEEEeccccCHHHHHHHHHHHhc
Confidence                               1255666777774     567777777776664  45678888999999999999775

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.19  E-value=5.7e-10  Score=81.30  Aligned_cols=55  Identities=16%  Similarity=0.048  Sum_probs=44.9

Q ss_pred             cEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         128 QVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       128 p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .-++|+||.|+...-..+.+...+-++..+  .+++++|.++|+|++++++|+....
T Consensus       144 aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         144 ADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             eeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            358999999997766666677776666654  6999999999999999999987643

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.18  E-value=5.3e-10  Score=89.25  Aligned_cols=84  Identities=19%  Similarity=0.175  Sum_probs=57.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe------------C----CeEEEEEEEeCCCc----
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR------------H----DKRVKLQIWDTAGQ----   80 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~------------~----~~~~~~~i~D~~g~----   80 (221)
                      .+++++||.||+|||||.|+++.........|..+++-+.-...+            .    .....+.|+|++|-    
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            478999999999999999999988754455554444333222211            1    12357899999982    


Q ss_pred             ---ccccccchhhccCCcEEEEEEECC
Q psy2300          81 ---ERYRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        81 ---~~~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                         +......-..++++|++++|+++.
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEec
Confidence               223333344578999999999965

>smart00053 DYNc Dynamin, GTPase

Probab=99.17  E-value=5.1e-10  Score=85.87  Aligned_cols=68  Identities=12%  Similarity=0.179  Sum_probs=43.3

Q ss_pred             EEEEEEeCCCccc-------------ccccchhhcc-CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeC
Q psy2300          70 VKLQIWDTAGQER-------------YRTITTAYYR-GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK  135 (221)
Q Consensus        70 ~~~~i~D~~g~~~-------------~~~~~~~~~~-~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK  135 (221)
                      ..++++|+||-..             ...+...|+. ..+++++|+|+...-.-.....+...+..   .+.+.++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEEC
Confidence            4588999999531             1234455666 45699999998653222222233333333   48999999999


Q ss_pred             CCCCC
Q psy2300         136 CDMED  140 (221)
Q Consensus       136 ~Dl~~  140 (221)
                      .|..+
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99854

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.16  E-value=2.7e-10  Score=87.69  Aligned_cols=145  Identities=17%  Similarity=0.164  Sum_probs=99.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC----------CC----CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS----------FT----SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~----------~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      .+.++|..+|+.+.|||||..+++.--          |.    .......+++.....+..+-.+..+-..|+||+..|-
T Consensus        10 kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYv   89 (394)
T COG0050          10 KPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYV   89 (394)
T ss_pred             CCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHH
Confidence            357999999999999999988875311          10    1122345777777777666666788999999999998


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHhCC--
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESLGV--  158 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~--  158 (221)
                      .++..-..+.|+.|+|+++.|.. +...+..+....+.   +.| +++++||+|+.++.++-   ..+.+++...+++  
T Consensus        90 KNMItgAaqmDgAILVVsA~dGp-mPqTrEHiLlarqv---Gvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~g  165 (394)
T COG0050          90 KNMITGAAQMDGAILVVAATDGP-MPQTREHILLARQV---GVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPG  165 (394)
T ss_pred             HHHhhhHHhcCccEEEEEcCCCC-CCcchhhhhhhhhc---CCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCC
Confidence            88888888999999999999832 11122222222332   776 67778999997644322   2346677777763  


Q ss_pred             ---eEEEEecCC
Q psy2300         159 ---EFFETSAKD  167 (221)
Q Consensus       159 ---~~~~~Sa~~  167 (221)
                         |++.-|+..
T Consensus       166 d~~Pii~gSal~  177 (394)
T COG0050         166 DDTPIIRGSALK  177 (394)
T ss_pred             CCcceeechhhh
Confidence               566666554

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=2.2e-10  Score=99.67  Aligned_cols=118  Identities=18%  Similarity=0.155  Sum_probs=89.6

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC--C--CCc------------cccceeeeeEEEEEEeCCe-EEEEEEEeCCCc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS--F--TSA------------FVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQ   80 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~--~--~~~------------~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~   80 (221)
                      ....-+|.++|+-.+|||||..+++...  .  .++            .....|++.........+. .+.++++|||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            4567889999999999999999987431  0  111            1122366666666655556 489999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      -.|.......++-+|++++|+|+...-..+.-.-|......    +.|.++++||+|..
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~rqa~~~----~vp~i~fiNKmDR~  141 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVWRQADKY----GVPRILFVNKMDRL  141 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHHHHHHHhhc----CCCeEEEEECcccc
Confidence            99998888899999999999999986555554456555443    89999999999974

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.13  E-value=9.5e-10  Score=93.88  Aligned_cols=125  Identities=14%  Similarity=0.144  Sum_probs=72.9

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee-eEEEEEEeCCeEEEEEEEeCCCccccc-------c
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID-FKVKTVFRHDKRVKLQIWDTAGQERYR-------T   85 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~   85 (221)
                      ...+-+..++|+|+|.+|+||||++|.|++...........+++ ........+  +..+.++||||.....       .
T Consensus       111 g~~~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~id--G~~L~VIDTPGL~dt~~dq~~nee  188 (763)
T TIGR00993       111 GQDPLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQ--GVKIRVIDTPGLKSSASDQSKNEK  188 (763)
T ss_pred             hccccCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEEC--CceEEEEECCCCCccccchHHHHH
Confidence            34455678999999999999999999999986433221111222 112222233  3579999999954221       1


Q ss_pred             c---chhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCC--CCcEEEEEeCCCCCC
Q psy2300          86 I---TTAYYR--GAMGFILMYDVTNEESFTSIQDWITQIKTYSWD--NAQVILVGNKCDMED  140 (221)
Q Consensus        86 ~---~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~--~~p~ivv~nK~Dl~~  140 (221)
                      +   ...++.  ..|++|+|..++.......-..++..+......  =...|||+|+.|...
T Consensus       189 ILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       189 ILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            1   111323  589999999876432221222344444333311  245788999999743

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.12  E-value=4.7e-10  Score=87.79  Aligned_cols=56  Identities=18%  Similarity=0.137  Sum_probs=40.8

Q ss_pred             CCcEEEEEeCCCCCCCcccCHHHHHHHHHHh--CCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         126 NAQVILVGNKCDMEDERVISFERGKHLAESL--GVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       126 ~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ..+-++|+||+|+........+......+..  ..+++++|+++|+|++++.+||.+.
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4667999999999643222333444444443  4689999999999999999998763

>KOG3886|consensus

Probab=99.10  E-value=2.3e-10  Score=85.08  Aligned_cols=147  Identities=22%  Similarity=0.314  Sum_probs=88.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-eEEEEEEEeCCCccccc-----ccchhhccCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQERYR-----TITTAYYRGA   94 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~-----~~~~~~~~~~   94 (221)
                      .-||+++|..|+|||++=..+..+.. .-.....|-+..+..-++.. ++..+.+||++|++.+-     ......++..
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~-a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV   82 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYI-ARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQEEFMENYLSSQEDNIFRNV   82 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhh-hhhhhccCCcceeeehhhhhhhhheeehhccCCcHHHHHHHHhhcchhhheeh
Confidence            35899999999999998554443321 11112223333333333322 33679999999988442     2445678899


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCC--CcccCHHHHHHHH----HHhCCeEEEEecC
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMED--ERVISFERGKHLA----ESLGVEFFETSAK  166 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~--~~~~~~~~~~~~~----~~~~~~~~~~Sa~  166 (221)
                      +++++|||+...+-..++..+...++...  .+...+.+...|+|+..  .+....++.....    ...++.++++|.+
T Consensus        83 ~vli~vFDves~e~~~D~~~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsiw  162 (295)
T KOG3886|consen   83 QVLIYVFDVESREMEKDFHYYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSIW  162 (295)
T ss_pred             eeeeeeeeccchhhhhhHHHHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccchh
Confidence            99999999988765555555444332222  36777999999999843  2222223222222    2233567777777


Q ss_pred             CC
Q psy2300         167 DN  168 (221)
Q Consensus       167 ~~  168 (221)
                      +.
T Consensus       163 De  164 (295)
T KOG3886|consen  163 DE  164 (295)
T ss_pred             hH
Confidence            64

>KOG1954|consensus

Probab=99.08  E-value=6e-10  Score=88.31  Aligned_cols=124  Identities=20%  Similarity=0.292  Sum_probs=88.9

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeeeeEEEEEEeCCeEE-----------------------
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGIDFKVKTVFRHDKRV-----------------------   70 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-----------------------   70 (221)
                      ..+.+...-|+++|.-+.||||||+.|+.+.|+.. ..+.+++++....+.-+..++                       
T Consensus        52 d~dfd~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~a  131 (532)
T KOG1954|consen   52 DPDFDAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNA  131 (532)
T ss_pred             CcccccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHH
Confidence            34556778899999999999999999999998763 344555566665553322111                       


Q ss_pred             ----------------EEEEEeCCCcc-----------cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC
Q psy2300          71 ----------------KLQIWDTAGQE-----------RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS  123 (221)
Q Consensus        71 ----------------~~~i~D~~g~~-----------~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~  123 (221)
                                      .++|+||||.-           .|......|...+|.|+++||+..-+--.++...+..+..+ 
T Consensus       132 flnRf~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~-  210 (532)
T KOG1954|consen  132 FLNRFMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH-  210 (532)
T ss_pred             HHHHHHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC-
Confidence                            16899999921           23344556788999999999987655555566666666654 


Q ss_pred             CCCCcEEEEEeCCCCCCC
Q psy2300         124 WDNAQVILVGNKCDMEDE  141 (221)
Q Consensus       124 ~~~~p~ivv~nK~Dl~~~  141 (221)
                        .-.+-||+||.|..+.
T Consensus       211 --EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  211 --EDKIRVVLNKADQVDT  226 (532)
T ss_pred             --cceeEEEeccccccCH
Confidence              6778899999998554

>cd01859 MJ1464 MJ1464

Probab=99.07  E-value=5.2e-10  Score=80.87  Aligned_cols=95  Identities=18%  Similarity=0.219  Sum_probs=65.0

Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEE
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFE  162 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  162 (221)
                      |+.+....+.++|++++|+|+.++....+. .+...+..   .+.|+++|+||+|+.+....  .....+....+.++++
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~-~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRSR-KLERYVLE---LGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCCH-HHHHHHHh---CCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEE
Confidence            455667778889999999999876432221 22222222   37899999999998543211  1111233345678999


Q ss_pred             EecCCCCCHHHHHHHHHHHHH
Q psy2300         163 TSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      +||+++.|++++++.+.+.+.
T Consensus        76 iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          76 VSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EEccccccHHHHHHHHHHHHh
Confidence            999999999999999987664

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.06  E-value=2.3e-09  Score=86.71  Aligned_cols=133  Identities=16%  Similarity=0.144  Sum_probs=92.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC----------------CCC----ccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS----------------FTS----AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~----------------~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ..-..+++-+|.+|||||-.+|+.-.                +..    +.....|++.....+.++..+..+.+.||||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPG   90 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPG   90 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCC
Confidence            34567999999999999999976321                000    1223346777777777888888999999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV  158 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  158 (221)
                      |+.|..-+-..+..+|..+.|+|+...-.- ....++... +  .++.||+-++||+|.+....  .+.+.+.-+.+++
T Consensus        91 HeDFSEDTYRtLtAvDsAvMVIDaAKGiE~-qT~KLfeVc-r--lR~iPI~TFiNKlDR~~rdP--~ELLdEiE~~L~i  163 (528)
T COG4108          91 HEDFSEDTYRTLTAVDSAVMVIDAAKGIEP-QTLKLFEVC-R--LRDIPIFTFINKLDREGRDP--LELLDEIEEELGI  163 (528)
T ss_pred             ccccchhHHHHHHhhheeeEEEecccCccH-HHHHHHHHH-h--hcCCceEEEeeccccccCCh--HHHHHHHHHHhCc
Confidence            999987776778899999999998764321 122233322 2  35999999999999865432  3444444444443

>KOG0468|consensus

Probab=99.04  E-value=1.5e-09  Score=91.77  Aligned_cols=116  Identities=22%  Similarity=0.268  Sum_probs=82.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc---cc------------cceeeeeE--EEEEE---eCCeEEEEEEEeCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSA---FV------------STVGIDFK--VKTVF---RHDKRVKLQIWDTA   78 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~---~~------------~~~~~~~~--~~~~~---~~~~~~~~~i~D~~   78 (221)
                      +...+|+++|+-.+|||+|+.-|..+..+.-   ..            ...+.+..  ..++.   ..++.+-+++.|||
T Consensus       126 ~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTP  205 (971)
T KOG0468|consen  126 ERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTP  205 (971)
T ss_pred             ceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCC
Confidence            4678999999999999999999887643211   00            01122222  22222   24556789999999


Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      ||-.+.......++.+|++++|+|+.+.-.+..-+-....+.    .+.|+++|+||+|.
T Consensus       206 GHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq----~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  206 GHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ----NRLPIVVVINKVDR  261 (971)
T ss_pred             CcccchHHHHHHhhhcceEEEEEEcccCceeeHHHHHHHHHh----ccCcEEEEEehhHH
Confidence            999888888888999999999999988765544333323332    48999999999995

>PRK12289 GTPase RsgA; Reviewed

Probab=99.00  E-value=3.3e-09  Score=86.02  Aligned_cols=93  Identities=11%  Similarity=0.204  Sum_probs=68.6

Q ss_pred             cccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEE
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFE  162 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  162 (221)
                      ..+.+..+.++|.+++|+|+.++. ....+..|+.....   .+.|+++|+||+|+......  ..........++.+++
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~  154 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLF  154 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEE
Confidence            344555688999999999998875 44456667666543   38999999999999543221  2222333466789999


Q ss_pred             EecCCCCCHHHHHHHHHHH
Q psy2300         163 TSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~  181 (221)
                      +||+++.|++++++.|...
T Consensus       155 iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        155 ISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEcCCCCCHHHHhhhhccc
Confidence            9999999999999988654

>cd01855 YqeH YqeH

Probab=98.99  E-value=2.8e-09  Score=79.58  Aligned_cols=94  Identities=20%  Similarity=0.249  Sum_probs=64.9

Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhC
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLG  157 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~  157 (221)
                      +..++..+++.+|++++|+|+.++...     |...+... ..+.|+++|+||+|+..... ..+....+.     ...+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~-----~~~~l~~~-~~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS-----LIPRLRLF-GGNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc-----cchhHHHh-cCCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhhcC
Confidence            466677789999999999999875421     11222111 14689999999999864322 223333333     2233


Q ss_pred             C---eEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         158 V---EFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       158 ~---~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .   .++++||++|.|+++++++|.+.+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            2   6899999999999999999988764

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>KOG1487|consensus

Probab=98.99  E-value=5.2e-09  Score=79.39  Aligned_cols=170  Identities=16%  Similarity=0.104  Sum_probs=103.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------cccccchhhccC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------RYRTITTAYYRG   93 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~~~~~~~~~~~   93 (221)
                      .-+|.++|.|++|||||+..+.+...+  .....+++.....-....+.-.+++.|.||.-       ..........+.
T Consensus        59 ~a~vg~vgFPSvGksTl~~~l~g~~s~--vasyefttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavart  136 (358)
T KOG1487|consen   59 DARVGFVGFPSVGKSTLLSKLTGTFSE--VAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVART  136 (358)
T ss_pred             ceeeeEEecCccchhhhhhhhcCCCCc--cccccceeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEEeec
Confidence            348999999999999999999887532  22333333333333333345679999999932       122334445788


Q ss_pred             CcEEEEEEECCChhhHHHHHH-----------------------------------------HHHHHHhh----------
Q psy2300          94 AMGFILMYDVTNEESFTSIQD-----------------------------------------WITQIKTY----------  122 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~-----------------------------------------~~~~l~~~----------  122 (221)
                      |+++++|.|+..|-+...+..                                         .+.....+          
T Consensus       137 cnli~~vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~Da  216 (358)
T KOG1487|consen  137 CNLIFIVLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDA  216 (358)
T ss_pred             ccEEEEEeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCc
Confidence            999999999765433222211                                         00000000          


Q ss_pred             -----------CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHH--Hhhccc
Q psy2300         123 -----------SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC--DKMSES  189 (221)
Q Consensus       123 -----------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~--~~~~~~  189 (221)
                                 ...-.|.+++.||+|...-     ++..-..  .....+++||.+++|++++++-+.+.+.  +.+.++
T Consensus       217 T~DdLIdvVegnr~yVp~iyvLNkIdsISi-----EELdii~--~iphavpISA~~~wn~d~lL~~mweyL~LvriYtkP  289 (358)
T KOG1487|consen  217 TADDLIDVVEGNRIYVPCIYVLNKIDSISI-----EELDIIY--TIPHAVPISAHTGWNFDKLLEKMWEYLKLVRIYTKP  289 (358)
T ss_pred             chhhhhhhhccCceeeeeeeeecccceeee-----eccceee--eccceeecccccccchHHHHHHHhhcchheEEecCC
Confidence                       0013577888888885332     2221111  1125789999999999999999998653  445666


Q ss_pred             cCCCCCCCCC
Q psy2300         190 LDSDPNLVAG  199 (221)
Q Consensus       190 ~~~~~~~~~~  199 (221)
                      ....|+-..+
T Consensus       290 Kgq~PDy~~p  299 (358)
T KOG1487|consen  290 KGQPPDYTSP  299 (358)
T ss_pred             CCCCCCCCCC
Confidence            6666655443

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=98.97  E-value=4.1e-09  Score=81.69  Aligned_cols=105  Identities=18%  Similarity=0.134  Sum_probs=64.7

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      +.+.|++|.|--..   -.....-+|.+++|.-..-.+..+-++.=+.        ..--++|+||.|.......-.+..
T Consensus       144 ~DvIIVETVGvGQs---ev~I~~~aDt~~~v~~pg~GD~~Q~iK~Gim--------EiaDi~vINKaD~~~A~~a~r~l~  212 (323)
T COG1703         144 YDVIIVETVGVGQS---EVDIANMADTFLVVMIPGAGDDLQGIKAGIM--------EIADIIVINKADRKGAEKAARELR  212 (323)
T ss_pred             CCEEEEEecCCCcc---hhHHhhhcceEEEEecCCCCcHHHHHHhhhh--------hhhheeeEeccChhhHHHHHHHHH
Confidence            44677888763211   1234566899998887665665555544222        234588999999755422111111


Q ss_pred             H--HHH----HHhC--CeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         150 K--HLA----ESLG--VEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       150 ~--~~~----~~~~--~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      .  .+.    ...+  -+++.+||.+|+|++++++.|.+...-.
T Consensus       213 ~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         213 SALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             HHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            1  111    1112  4799999999999999999988865433

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=98.95  E-value=3.5e-10  Score=86.34  Aligned_cols=149  Identities=15%  Similarity=0.135  Sum_probs=83.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCC-------ccccce-------------------eeeeEEEEEEeCC------
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTS-------AFVSTV-------------------GIDFKVKTVFRHD------   67 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~-------~~~~~~-------------------~~~~~~~~~~~~~------   67 (221)
                      +.+.|.|.|+||+|||||+++|...-...       ...|+.                   ....+...+...+      
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            57899999999999999999876421000       001110                   1112333321111      


Q ss_pred             ------------eEEEEEEEeCCC--cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEE
Q psy2300          68 ------------KRVKLQIWDTAG--QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG  133 (221)
Q Consensus        68 ------------~~~~~~i~D~~g--~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~  133 (221)
                                  -++.+.|++|.|  +.+.     ....-+|.+++|....-.+..+.++.-+.+        ..-++|+
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimE--------iaDi~vV  174 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKAGIME--------IADIFVV  174 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-TTHHH--------H-SEEEE
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhhhhhh--------hccEEEE
Confidence                        124467777765  3322     346679999999987766555544442222        3458999


Q ss_pred             eCCCCCCCcccCHHHHHHHHHHh-------CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         134 NKCDMEDERVISFERGKHLAESL-------GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       134 nK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ||.|.+..... ..+.+......       ..+++.+||.++.|++++++.|.+..
T Consensus       175 NKaD~~gA~~~-~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~  229 (266)
T PF03308_consen  175 NKADRPGADRT-VRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHR  229 (266)
T ss_dssp             E--SHHHHHHH-HHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             eCCChHHHHHH-HHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            99996543322 22222222211       24899999999999999999987754

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>KOG1547|consensus

Probab=98.95  E-value=1.6e-08  Score=75.94  Aligned_cols=164  Identities=15%  Similarity=0.222  Sum_probs=92.8

Q ss_pred             hhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc---------cccceeeeeEEEEEEeCCeEEEEEEEeCC
Q psy2300           8 KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA---------FVSTVGIDFKVKTVFRHDKRVKLQIWDTA   78 (221)
Q Consensus         8 ~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~   78 (221)
                      ..|.+......-..|+|.|||..|.|||||+|.+...+....         +..|..+......+.-++-..+++++|||
T Consensus        33 ~~Qm~~k~mk~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTP  112 (336)
T KOG1547|consen   33 IEQMRKKTMKTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTP  112 (336)
T ss_pred             HHHHHHHHHhccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCC
Confidence            345555555556689999999999999999999876543221         11122222223333345556788999999


Q ss_pred             Ccc-------cc-------------------cccchhhc--cCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcE
Q psy2300          79 GQE-------RY-------------------RTITTAYY--RGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQV  129 (221)
Q Consensus        79 g~~-------~~-------------------~~~~~~~~--~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~  129 (221)
                      |.-       .|                   ...+...+  ..+++++|.+..+.. ++.-+. .++..+.+    -+-+
T Consensus       113 GfGDqInN~ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGh-sLrplDieflkrLt~----vvNv  187 (336)
T KOG1547|consen  113 GFGDQINNDNCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGH-SLRPLDIEFLKRLTE----VVNV  187 (336)
T ss_pred             CcccccCccchhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCC-ccCcccHHHHHHHhh----hhee
Confidence            921       11                   11111222  246788888887643 222222 23334433    4667


Q ss_pred             EEEEeCCCCCC--CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         130 ILVGNKCDMED--ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       130 ivv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |-|+.|.|.-.  .+..-.+..+.....+++.+++-.+.+...=+..++
T Consensus       188 vPVIakaDtlTleEr~~FkqrI~~el~~~~i~vYPq~~fded~ed~~lN  236 (336)
T KOG1547|consen  188 VPVIAKADTLTLEERSAFKQRIRKELEKHGIDVYPQDSFDEDLEDKTLN  236 (336)
T ss_pred             eeeEeecccccHHHHHHHHHHHHHHHHhcCcccccccccccchhHHHHH
Confidence            88889999632  111222334455566788888776665443333333

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.95  E-value=7.3e-09  Score=82.66  Aligned_cols=160  Identities=16%  Similarity=0.111  Sum_probs=97.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC--------------cccc--ceeeeeEEEEEE----------------
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTS--------------AFVS--TVGIDFKVKTVF----------------   64 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~--------------~~~~--~~~~~~~~~~~~----------------   64 (221)
                      ..+..+.|++.|+.++|||||+-.|..+....              +...  +...++...-+.                
T Consensus       113 ~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~  192 (527)
T COG5258         113 EAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEK  192 (527)
T ss_pred             CCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHH
Confidence            34567899999999999999999887654322              1111  112222222110                


Q ss_pred             ---eCCeEEEEEEEeCCCcccccccch--hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          65 ---RHDKRVKLQIWDTAGQERYRTITT--AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        65 ---~~~~~~~~~i~D~~g~~~~~~~~~--~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                         ++..+--+.|.|+.|++.|-+...  .+-.+.|..++++.++|.-+... +..+.....   -..|++|+++|+|+.
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t-kEHLgi~~a---~~lPviVvvTK~D~~  268 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT-KEHLGIALA---MELPVIVVVTKIDMV  268 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh-hHhhhhhhh---hcCCEEEEEEecccC
Confidence               011112368999999999876443  34467999999999998643222 222222222   289999999999985


Q ss_pred             CCcccC--HHHHHHHHHHh------------------------C-CeEEEEecCCCCCHHHHHHHHHH
Q psy2300         140 DERVIS--FERGKHLAESL------------------------G-VEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       140 ~~~~~~--~~~~~~~~~~~------------------------~-~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      .+....  .++.....+..                        + .|+|.+|+.+|+|++-|.+.+..
T Consensus       269 ~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~~  336 (527)
T COG5258         269 PDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFLL  336 (527)
T ss_pred             cHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHHh
Confidence            432111  11222222211                        1 47999999999999876665443

>PRK00098 GTPase RsgA; Reviewed

Probab=98.95  E-value=4.9e-09  Score=83.63  Aligned_cols=87  Identities=17%  Similarity=0.218  Sum_probs=64.9

Q ss_pred             hccCCcEEEEEEECCChhhHHH-HHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTS-IQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~-~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      .+.++|++++|+|+.++..... +..|+..+..   .+.|+++|+||+|+.+... ............+++++++||+++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            3589999999999988765444 4567666654   3799999999999953322 122334445566789999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVD  180 (221)
Q Consensus       169 ~gi~~l~~~i~~  180 (221)
                      .|++++++.+..
T Consensus       153 ~gi~~L~~~l~g  164 (298)
T PRK00098        153 EGLDELKPLLAG  164 (298)
T ss_pred             ccHHHHHhhccC
Confidence            999999988753

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.95  E-value=5.9e-09  Score=82.72  Aligned_cols=86  Identities=15%  Similarity=0.142  Sum_probs=67.5

Q ss_pred             hccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          90 YYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      .+.++|.+++|+|+.++. ++..+..|+..+...   +.|+++|+||+|+.....  ......+....+.+++.+|++++
T Consensus        75 i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~~---~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vSA~~g  149 (287)
T cd01854          75 IAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEAA---GIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVSAKTG  149 (287)
T ss_pred             EEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHHc---CCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEECCCC
Confidence            478899999999999887 788888888777653   799999999999955321  12223334456789999999999


Q ss_pred             CCHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVD  180 (221)
Q Consensus       169 ~gi~~l~~~i~~  180 (221)
                      .|+++++..|..
T Consensus       150 ~gi~~L~~~L~~  161 (287)
T cd01854         150 EGLDELREYLKG  161 (287)
T ss_pred             ccHHHHHhhhcc
Confidence            999999988764

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.93  E-value=6.4e-09  Score=86.12  Aligned_cols=115  Identities=19%  Similarity=0.255  Sum_probs=77.9

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTY-SWDNAQVILVGNKC  136 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~  136 (221)
                      ....+.++|++|+...+.-|..++.++++||||+++++          ...+.+...++..+-.. ...+.|++|++||.
T Consensus       234 ~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~  313 (389)
T PF00503_consen  234 GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKI  313 (389)
T ss_dssp             TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-H
T ss_pred             cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecH
Confidence            34678999999999888899999999999999999764          12344444444444322 23589999999999


Q ss_pred             CCC-----C-C----------c--ccCHHHHHHHHHHh------------CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         137 DME-----D-E----------R--VISFERGKHLAESL------------GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       137 Dl~-----~-~----------~--~~~~~~~~~~~~~~------------~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      |+-     . .          -  .-..+.+..+....            .+.++.++|.+...+..+|+.+.+.|
T Consensus       314 D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  314 DLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            961     1 1          0  12344444444332            12566899999899999998887653

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.92  E-value=6.3e-08  Score=77.16  Aligned_cols=147  Identities=16%  Similarity=0.227  Sum_probs=85.7

Q ss_pred             hhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc----------cccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          11 KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA----------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        11 ~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ..+..-..--.+.|+++|+.|.|||||+|.|++......          ..++..+......+.-++-.++++++||||.
T Consensus        13 r~~~~~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGf   92 (373)
T COG5019          13 RHRKLSKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGF   92 (373)
T ss_pred             HHHHHHhcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCc
Confidence            333333334579999999999999999999998743222          1233334444444444555688999999992


Q ss_pred             ccc---cccch-------------------------hhccCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEE
Q psy2300          81 ERY---RTITT-------------------------AYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVIL  131 (221)
Q Consensus        81 ~~~---~~~~~-------------------------~~~~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~iv  131 (221)
                      -.+   ...|.                         ..=...+++||.+..+... +..+. ..+..+.    ..+-+|-
T Consensus        93 GD~idNs~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~-l~~~DIe~Mk~ls----~~vNlIP  167 (373)
T COG5019          93 GDFIDNSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHG-LKPLDIEAMKRLS----KRVNLIP  167 (373)
T ss_pred             cccccccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCC-CCHHHHHHHHHHh----cccCeee
Confidence            100   01111                         0113478899999866422 22222 2333443    3678999


Q ss_pred             EEeCCCCCCCcccC--HHHHHHHHHHhCCeEEE
Q psy2300         132 VGNKCDMEDERVIS--FERGKHLAESLGVEFFE  162 (221)
Q Consensus       132 v~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~  162 (221)
                      |+.|+|.-...++.  .+.+.+-...+++++|.
T Consensus       168 VI~KaD~lT~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         168 VIAKADTLTDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             eeeccccCCHHHHHHHHHHHHHHHHHhCCceeC
Confidence            99999974432221  12233444556777763

>PRK12288 GTPase RsgA; Reviewed

Probab=98.86  E-value=2.5e-08  Score=80.91  Aligned_cols=88  Identities=15%  Similarity=0.158  Sum_probs=67.3

Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-CHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-SFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      ..++|.+++|++.....++..+..|+.....   .+.|.++|+||+|+...... ............+.+++++||+++.
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            4569999999999888889999889876654   37999999999999543211 1122233344567899999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDI  181 (221)
Q Consensus       170 gi~~l~~~i~~~  181 (221)
                      |+++++++|...
T Consensus       195 GideL~~~L~~k  206 (347)
T PRK12288        195 GLEELEAALTGR  206 (347)
T ss_pred             CHHHHHHHHhhC
Confidence            999999988653

>KOG2655|consensus

Probab=98.86  E-value=1.2e-07  Score=76.07  Aligned_cols=157  Identities=15%  Similarity=0.278  Sum_probs=89.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCc---------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------cc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSA---------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------RY   83 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~   83 (221)
                      ..+.++++|+.|.|||||||.|+...+...         ...+.........+.-++-.+++++.||||.-       .|
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            469999999999999999999987754322         11222333333344445556889999999911       11


Q ss_pred             c------------------ccchhhcc--CCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          84 R------------------TITTAYYR--GAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        84 ~------------------~~~~~~~~--~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      .                  .+.+..+.  ..+++||.+..+... +..+. ..+..+.    ..+.+|-|+.|.|.-...
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghg-L~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~  174 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHG-LKPLDIEFMKKLS----KKVNLIPVIAKADTLTKD  174 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCC-CcHhhHHHHHHHh----ccccccceeeccccCCHH
Confidence            1                  11111222  688999999876432 22222 2333343    378899999999985543


Q ss_pred             ccCH--HHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         143 VISF--ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       143 ~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      ++..  .....-+..+++++|....-..   ++.+-...+.+..
T Consensus       175 El~~~K~~I~~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l~~  215 (366)
T KOG2655|consen  175 ELNQFKKRIRQDIEEHNIKVFDFPTDES---DEELKEEEQDLKS  215 (366)
T ss_pred             HHHHHHHHHHHHHHHcCcceecCCCCcc---hhhhHHHHHHHhh
Confidence            3221  1233334455676665444332   3444333444443

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.83  E-value=8.9e-09  Score=73.14  Aligned_cols=54  Identities=20%  Similarity=0.343  Sum_probs=40.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +++++|.+|+|||||+|++.+.... ......+.+.....+..+.   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKV-SVSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce-eeCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            8999999999999999999988753 3334445555555555543   4789999985

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.80  E-value=1.9e-08  Score=73.72  Aligned_cols=57  Identities=19%  Similarity=0.317  Sum_probs=43.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ...++|+|+|.||+|||||+|++.+... ....+.+|+|.....+..+.   .+.++||||
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~-~~~~~~pg~T~~~~~~~~~~---~~~l~DtPG  171 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRA-CNVGATPGVTKSMQEVHLDK---KVKLLDSPG  171 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCccc-ceecCCCCeEcceEEEEeCC---CEEEEECcC
Confidence            4468999999999999999999998764 23345566666655555432   578999998

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd01858 NGP_1 NGP-1

Probab=98.76  E-value=2.9e-08  Score=71.82  Aligned_cols=56  Identities=16%  Similarity=0.195  Sum_probs=40.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ..++|+++|.||+|||||+|+|.+... ....+..+.+.....+..+.   .+.++||||
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~-~~~~~~~g~T~~~~~~~~~~---~~~liDtPG  156 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKV-CKVAPIPGETKVWQYITLMK---RIYLIDCPG  156 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCc-eeeCCCCCeeEeEEEEEcCC---CEEEEECcC
Confidence            457899999999999999999998653 22344455555544444332   367999998

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>KOG1143|consensus

Probab=98.76  E-value=4.9e-08  Score=77.85  Aligned_cols=155  Identities=19%  Similarity=0.245  Sum_probs=92.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCC--------------cccc--ceeeeeEEEE-------EEe----------C
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTS--------------AFVS--TVGIDFKVKT-------VFR----------H   66 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~--------------~~~~--~~~~~~~~~~-------~~~----------~   66 (221)
                      -.++++|+|.-.+|||||+-.|..+..+.              +..+  |..+.....-       +.+          +
T Consensus       166 ievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e  245 (591)
T KOG1143|consen  166 IEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVE  245 (591)
T ss_pred             eEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHh
Confidence            47899999999999999998887654321              1111  1111111100       000          0


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccC--CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRG--AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~--~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      ...--++|+|.+|+..|.......+.+  .|..++|++++..-... .+..+..+...   +.|++|+++|+|+.....+
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~t-TrEHLgl~~AL---~iPfFvlvtK~Dl~~~~~~  321 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWT-TREHLGLIAAL---NIPFFVLVTKMDLVDRQGL  321 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccc-cHHHHHHHHHh---CCCeEEEEEeeccccchhH
Confidence            011237899999999998776655543  68888999887643222 12233333333   8999999999998543211


Q ss_pred             C--HHHHHHH----------------------HHHh---C-CeEEEEecCCCCCHHHHHHHH
Q psy2300         145 S--FERGKHL----------------------AESL---G-VEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       145 ~--~~~~~~~----------------------~~~~---~-~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      .  ..+...+                      ++..   + .|+|.+|+.+|+|++-+...+
T Consensus       322 ~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fL  383 (591)
T KOG1143|consen  322 KKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFL  383 (591)
T ss_pred             HHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHH
Confidence            1  1111111                      1111   2 479999999999998765543

>KOG0099|consensus

Probab=98.75  E-value=7.2e-08  Score=73.38  Aligned_cols=122  Identities=20%  Similarity=0.229  Sum_probs=80.6

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTYS-WDNAQVILVGNKC  136 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~  136 (221)
                      ..++++.+|.+|+..-+.-|...+.+..++|||+..+.          ...+.+...++..+.... .....+|+++||.
T Consensus       200 dkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKq  279 (379)
T KOG0099|consen  200 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQ  279 (379)
T ss_pred             cccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHH
Confidence            34678999999998888889999999999999998763          123333444555554443 3578899999999


Q ss_pred             CCCCC----------------------------cccC--HHHHHHHHH----Hh---------CCeEEEEecCCCCCHHH
Q psy2300         137 DMEDE----------------------------RVIS--FERGKHLAE----SL---------GVEFFETSAKDNVNVKG  173 (221)
Q Consensus       137 Dl~~~----------------------------~~~~--~~~~~~~~~----~~---------~~~~~~~Sa~~~~gi~~  173 (221)
                      |+-..                            ...+  +..++-+.+    ++         -+.+.++.|.+-++|..
T Consensus       280 DllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenIrr  359 (379)
T KOG0099|consen  280 DLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRR  359 (379)
T ss_pred             HHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHHHH
Confidence            97210                            0000  011111111    11         13456788999999999


Q ss_pred             HHHHHHHHHHHhhccc
Q psy2300         174 VFERLVDIICDKMSES  189 (221)
Q Consensus       174 l~~~i~~~~~~~~~~~  189 (221)
                      +|+...+.+.......
T Consensus       360 VFnDcrdiIqr~hlrq  375 (379)
T KOG0099|consen  360 VFNDCRDIIQRMHLRQ  375 (379)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999888887665443

>KOG2486|consensus

Probab=98.75  E-value=1.1e-08  Score=78.47  Aligned_cols=157  Identities=15%  Similarity=0.134  Sum_probs=94.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-ceeeeeEEEEEEeCCeEEEEEEEeCCC----------cccccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVS-TVGIDFKVKTVFRHDKRVKLQIWDTAG----------QERYRT   85 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~   85 (221)
                      |.+....++++|-.|+|||+||+-+...+....... ..+.+.....+.+.   -.+.+.|.||          ...+..
T Consensus       132 Pk~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~---~~~~~vDlPG~~~a~y~~~~~~d~~~  208 (320)
T KOG2486|consen  132 PKDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVG---KSWYEVDLPGYGRAGYGFELPADWDK  208 (320)
T ss_pred             CCCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeecc---ceEEEEecCCcccccCCccCcchHhH
Confidence            445679999999999999999999988764433333 55555555555443   3577899999          123444


Q ss_pred             cchhhccCCc---EEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCcc-------cC----HHHHH
Q psy2300          86 ITTAYYRGAM---GFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDERV-------IS----FERGK  150 (221)
Q Consensus        86 ~~~~~~~~~d---~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~-------~~----~~~~~  150 (221)
                      ....|+.+-+   -+++.+|++-+-  ..... .+..+.++   ++|+.+|+||+|......       .+    +....
T Consensus       209 ~t~~Y~leR~nLv~~FLLvd~sv~i--~~~D~~~i~~~ge~---~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~  283 (320)
T KOG2486|consen  209 FTKSYLLERENLVRVFLLVDASVPI--QPTDNPEIAWLGEN---NVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLI  283 (320)
T ss_pred             hHHHHHHhhhhhheeeeeeeccCCC--CCCChHHHHHHhhc---CCCeEEeeehhhhhhhccccccCccccceeehhhcc
Confidence            4555554322   355666665321  11111 22334443   899999999999732111       11    11111


Q ss_pred             HHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         151 HLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       151 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ........+++.+|+.++.|+++|+-.|.+.
T Consensus       284 ~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  284 RGVFLVDLPWIYVSSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             ccceeccCCceeeecccccCceeeeeehhhh
Confidence            1111123566779999999999987766543

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.74  E-value=4.4e-08  Score=80.14  Aligned_cols=95  Identities=19%  Similarity=0.356  Sum_probs=67.8

Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH----HHHHH
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK----HLAES  155 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~~  155 (221)
                      .+.|..+...+...++++++|+|+.+..     ..|...+..+. .+.|+++|+||+|+... ....+...    ++++.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~-~~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV-GGNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh-CCCCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHH
Confidence            4567777777888999999999997753     12334444332 36899999999998543 22333333    33555


Q ss_pred             hCC---eEEEEecCCCCCHHHHHHHHHHH
Q psy2300         156 LGV---EFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       156 ~~~---~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .++   .++.+||++|.|++++++.|.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            665   48999999999999999998664

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG1491|consensus

Probab=98.73  E-value=1.7e-08  Score=79.35  Aligned_cols=85  Identities=20%  Similarity=0.155  Sum_probs=60.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC---------------eEEEEEEEeCCCcc---
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD---------------KRVKLQIWDTAGQE---   81 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~i~D~~g~~---   81 (221)
                      +.+++++||.||+|||||.|.|+.....+...|..+++-....+.+..               ....++++|++|--   
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGA   98 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGA   98 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCc
Confidence            678999999999999999999999987776666665554444332211               12468999999821   


Q ss_pred             ----cccccchhhccCCcEEEEEEECC
Q psy2300          82 ----RYRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        82 ----~~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                          ....-....++.+|+++.|+++.
T Consensus        99 s~G~GLGN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   99 SAGEGLGNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcCchHHHHHhhhhccceeEEEEec
Confidence                12222334578899999999864

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=1.6e-07  Score=78.64  Aligned_cols=112  Identities=12%  Similarity=0.135  Sum_probs=72.5

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +.++.+-|+|+|+||+||||||+.|...-. ......+   ..++++ +.++..+++|.++|.  .... ......-+|+
T Consensus        65 d~PPPfIvavvGPpGtGKsTLirSlVrr~t-k~ti~~i---~GPiTv-vsgK~RRiTflEcp~--Dl~~-miDvaKIaDL  136 (1077)
T COG5192          65 DLPPPFIVAVVGPPGTGKSTLIRSLVRRFT-KQTIDEI---RGPITV-VSGKTRRITFLECPS--DLHQ-MIDVAKIADL  136 (1077)
T ss_pred             cCCCCeEEEeecCCCCChhHHHHHHHHHHH-Hhhhhcc---CCceEE-eecceeEEEEEeChH--HHHH-HHhHHHhhhe
Confidence            334678899999999999999998876531 1111111   112222 235667899999983  2222 2335677999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMED  140 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~  140 (221)
                      +++++|..-.-.++.+ .+++.+..+   +.| ++-|+++.|+-.
T Consensus       137 VlLlIdgnfGfEMETm-EFLnil~~H---GmPrvlgV~ThlDlfk  177 (1077)
T COG5192         137 VLLLIDGNFGFEMETM-EFLNILISH---GMPRVLGVVTHLDLFK  177 (1077)
T ss_pred             eEEEeccccCceehHH-HHHHHHhhc---CCCceEEEEeeccccc
Confidence            9999998865544444 344444444   666 566789999854

>cd01858 NGP_1 NGP-1

Probab=98.71  E-value=8.7e-08  Score=69.29  Aligned_cols=91  Identities=16%  Similarity=0.116  Sum_probs=57.7

Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      .+..+|++++|+|+.++.... ...+...+... ..+.|+++|+||+|+...... ......+.+.+...++.+||+.+.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~-~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~~~   81 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTR-CKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINNPF   81 (157)
T ss_pred             hhhhCCEEEEEEECCCCcccc-CHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccccc
Confidence            578899999999999863221 11222233222 236899999999999543211 111222222222335789999999


Q ss_pred             CHHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDIIC  183 (221)
Q Consensus       170 gi~~l~~~i~~~~~  183 (221)
                      |++++++++.+.+.
T Consensus        82 ~~~~L~~~l~~~~~   95 (157)
T cd01858          82 GKGSLIQLLRQFSK   95 (157)
T ss_pred             cHHHHHHHHHHHHh
Confidence            99999999877543

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>cd01856 YlqF YlqF

Probab=98.69  E-value=5.5e-08  Score=71.35  Aligned_cols=58  Identities=16%  Similarity=0.264  Sum_probs=43.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +..++++++|.+|+|||||++++.+..+. ......++++....+..+   ..+.+|||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVA-KVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            34589999999999999999999987753 334445556665555554   35789999983

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>KOG0460|consensus

Probab=98.69  E-value=1.4e-07  Score=74.35  Aligned_cols=143  Identities=16%  Similarity=0.173  Sum_probs=95.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC----------CCC----CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD----------SFT----SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~----------~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      .+.++|.-+|+...|||||--++..-          +|.    .......|++.+...+.+.-....+-=.|+||+..|-
T Consensus        52 KPHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYI  131 (449)
T KOG0460|consen   52 KPHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYI  131 (449)
T ss_pred             CCcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHH
Confidence            35789999999999999997776421          111    0112334667776666665555677788999999998


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCC-cEEEEEeCCCCCCCcc---cCHHHHHHHHHHhC---
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNA-QVILVGNKCDMEDERV---ISFERGKHLAESLG---  157 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~-p~ivv~nK~Dl~~~~~---~~~~~~~~~~~~~~---  157 (221)
                      .++..-..+.|+.|+|++++|.. +...+..+..-.+.   ++ .++|++||.|+.++.+   +-.-+++++...++   
T Consensus       132 KNMItGaaqMDGaILVVaatDG~-MPQTrEHlLLArQV---GV~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~G  207 (449)
T KOG0460|consen  132 KNMITGAAQMDGAILVVAATDGP-MPQTREHLLLARQV---GVKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDG  207 (449)
T ss_pred             HHhhcCccccCceEEEEEcCCCC-CcchHHHHHHHHHc---CCceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCC
Confidence            88888888999999999999853 23333333333343   44 4888899999974322   12234566666665   


Q ss_pred             --CeEEEEec
Q psy2300         158 --VEFFETSA  165 (221)
Q Consensus       158 --~~~~~~Sa  165 (221)
                        +|++.=||
T Consensus       208 d~~PvI~GSA  217 (449)
T KOG0460|consen  208 DNTPVIRGSA  217 (449)
T ss_pred             CCCCeeecch
Confidence              56775444

>TIGR00092 GTP-binding protein YchF

Probab=98.69  E-value=7.1e-08  Score=78.17  Aligned_cols=83  Identities=17%  Similarity=0.029  Sum_probs=56.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccc---
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQER---   82 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~---   82 (221)
                      ++++++|.|++|||||.+.+++... .....|..+.......+.+...               ...+.+.|+||--.   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999999875 4443344333333333333321               24678999999322   


Q ss_pred             ----ccccchhhccCCcEEEEEEECC
Q psy2300          83 ----YRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        83 ----~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                          ........++.+|++++|++..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2222334578999999999974

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01855 YqeH YqeH

Probab=98.67  E-value=4.5e-08  Score=73.05  Aligned_cols=56  Identities=14%  Similarity=0.244  Sum_probs=42.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCC-------CccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFT-------SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ..+++++|.+|+|||||+|.|.+....       ......+++|.....+..+.   .+.++||||
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG  189 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPG  189 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcC
Confidence            468999999999999999999975421       12334456777777776643   478999998

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.66  E-value=1.6e-07  Score=67.82  Aligned_cols=83  Identities=20%  Similarity=0.119  Sum_probs=55.4

Q ss_pred             cEEEEEEECCChhhHHHHHHHHH--HHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWIT--QIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~--~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      |++++|+|+.++.+....  ++.  .+..   .+.|+++|+||+|+.....+ ......+....+..++.+||+++.|++
T Consensus         1 Dvvl~VvD~~~p~~~~~~--~i~~~~~~~---~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~   74 (155)
T cd01849           1 DVILEVLDARDPLGTRSP--DIERVLIKE---KGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIE   74 (155)
T ss_pred             CEEEEEEeccCCccccCH--HHHHHHHhc---CCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChh
Confidence            789999999887654322  222  2222   47999999999999543211 011112222234578999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         173 GVFERLVDIIC  183 (221)
Q Consensus       173 ~l~~~i~~~~~  183 (221)
                      ++++.+.+.+.
T Consensus        75 ~L~~~i~~~~~   85 (155)
T cd01849          75 KKESAFTKQTN   85 (155)
T ss_pred             hHHHHHHHHhH
Confidence            99999887654

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.65  E-value=1.3e-07  Score=75.18  Aligned_cols=58  Identities=22%  Similarity=0.310  Sum_probs=44.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ...++|+|+|.||+|||||+|+|.+.... ...+.+++|.....+..+.   .+.++||||-
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~-~~~~~~g~T~~~~~~~~~~---~~~l~DtPGi  176 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIA-KTGNRPGVTKAQQWIKLGK---GLELLDTPGI  176 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCcc-ccCCCCCeEEEEEEEEeCC---cEEEEECCCc
Confidence            45689999999999999999999987642 3345566666665555442   4779999995

>KOG0463|consensus

Probab=98.65  E-value=1e-07  Score=76.13  Aligned_cols=160  Identities=16%  Similarity=0.150  Sum_probs=92.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCC--------------ccc--cc----------------------eeeeeEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTS--------------AFV--ST----------------------VGIDFKVK   61 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~--------------~~~--~~----------------------~~~~~~~~   61 (221)
                      -.++|+|||...+|||||+-.|.......              +..  .|                      .+......
T Consensus       132 ~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWv  211 (641)
T KOG0463|consen  132 IEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWV  211 (641)
T ss_pred             eeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCcccce
Confidence            37899999999999999998766543211              100  11                      11122223


Q ss_pred             EEEeCCeEEEEEEEeCCCcccccccchhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          62 TVFRHDKRVKLQIWDTAGQERYRTITTAYYR--GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        62 ~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      .+.-+.. -.++|+|..|++.|-.....-..  -.|...+++-++-. -+.-....+..-..   -.+|++||++|+|+.
T Consensus       212 kIce~sa-KviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaG-IiGmTKEHLgLALa---L~VPVfvVVTKIDMC  286 (641)
T KOG0463|consen  212 KICEDSA-KVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAG-IIGMTKEHLGLALA---LHVPVFVVVTKIDMC  286 (641)
T ss_pred             eeccccc-eeEEEEeccchhhhhheeeeccccCCCCceEEEeccccc-ceeccHHhhhhhhh---hcCcEEEEEEeeccC
Confidence            3322222 24889999999998776554332  36777777765431 11111222222222   279999999999997


Q ss_pred             CCcccCHH--HHHHHHHHh--------------------------CCeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         140 DERVISFE--RGKHLAESL--------------------------GVEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       140 ~~~~~~~~--~~~~~~~~~--------------------------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      .+..+...  .+.++.+..                          -+++|.+|-.+|.|++.+... +..+.-+
T Consensus       287 PANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF-LNlls~R  359 (641)
T KOG0463|consen  287 PANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF-LNLLSLR  359 (641)
T ss_pred             cHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH-HhhcCcc
Confidence            66544321  122222221                          157899999999999875544 3444333

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.64  E-value=1.7e-06  Score=70.52  Aligned_cols=159  Identities=14%  Similarity=0.237  Sum_probs=93.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc--------------cceee---ee-------EEEEEEe-CCeEEEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV--------------STVGI---DF-------KVKTVFR-HDKRVKLQI   74 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~--------------~~~~~---~~-------~~~~~~~-~~~~~~~~i   74 (221)
                      .-+=|+|||+..+||||||+||....+.+...              +..|.   |.       ....+.+ ++-.+++.+
T Consensus        16 GdIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRL   95 (492)
T PF09547_consen   16 GDIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRL   95 (492)
T ss_pred             CceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEE
Confidence            34779999999999999999997643221110              11111   11       1223334 445688999


Q ss_pred             EeCCC-------------ccccccc-c---------------hhhcc--CCcEEEEEEECC--C--hhhHHHHHH-HHHH
Q psy2300          75 WDTAG-------------QERYRTI-T---------------TAYYR--GAMGFILMYDVT--N--EESFTSIQD-WITQ  118 (221)
Q Consensus        75 ~D~~g-------------~~~~~~~-~---------------~~~~~--~~d~vi~v~d~~--~--~~s~~~~~~-~~~~  118 (221)
                      +|+-|             .+++... |               +..+.  ..-++++.-|.+  +  ++.+..+.. .+..
T Consensus        96 iDCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~E  175 (492)
T PF09547_consen   96 IDCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEE  175 (492)
T ss_pred             EeecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHH
Confidence            99987             0111110 0               00111  223455555544  2  455555544 6777


Q ss_pred             HHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         119 IKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       119 l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      |+..   ++||++++|-.+-.  .....+...++..+++.+++++++.. ..-+++..-|.+.+.+
T Consensus       176 Lk~i---gKPFvillNs~~P~--s~et~~L~~eL~ekY~vpVlpvnc~~-l~~~DI~~Il~~vLyE  235 (492)
T PF09547_consen  176 LKEI---GKPFVILLNSTKPY--SEETQELAEELEEKYDVPVLPVNCEQ-LREEDITRILEEVLYE  235 (492)
T ss_pred             HHHh---CCCEEEEEeCCCCC--CHHHHHHHHHHHHHhCCcEEEeehHH-cCHHHHHHHHHHHHhc
Confidence            7766   89999999988752  23345667788889999999888753 3444544444444433

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.63  E-value=1.1e-07  Score=75.16  Aligned_cols=58  Identities=22%  Similarity=0.346  Sum_probs=43.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ...++++|+|.||+|||||+|+|.+.... .....+++|.....+..+.   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~-~~~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVA-KVGNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcc-ccCCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            35689999999999999999999987642 2344556666655555432   4789999996

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>KOG3887|consensus

Probab=98.63  E-value=2.8e-07  Score=69.48  Aligned_cols=162  Identities=18%  Similarity=0.237  Sum_probs=94.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-c--cchhhccCCcEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-T--ITTAYYRGAMGF   97 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~--~~~~~~~~~d~v   97 (221)
                      ..+|+++|...+||||+-+.......+.+ .-....+-....-++.+.-+.+.+||.||+-.+- .  -....++++.++
T Consensus        27 kp~ilLMG~rRsGKsSI~KVVFhkMsPne-TlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gAL  105 (347)
T KOG3887|consen   27 KPRILLMGLRRSGKSSIQKVVFHKMSPNE-TLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGAL  105 (347)
T ss_pred             CceEEEEeecccCcchhhheeeeccCCCc-eeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeE
Confidence            45699999999999998776665543222 1111222222222333344789999999974332 1  234568999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCC-------cccCHHHHHHHHHHhC-----CeEEEE
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDE-------RVISFERGKHLAESLG-----VEFFET  163 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~-------~~~~~~~~~~~~~~~~-----~~~~~~  163 (221)
                      ++|+|+.+. -.+.+..+-..+.+.-  .++..+=|++.|.|--..       +.+.. ...+.....+     +.++.+
T Consensus       106 ifvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~q-r~~d~l~d~gle~v~vsf~LT  183 (347)
T KOG3887|consen  106 IFVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQ-RTNDELADAGLEKVQVSFYLT  183 (347)
T ss_pred             EEEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHH-HhhHHHHhhhhccceEEEEEe
Confidence            999998763 2233333222222211  467889999999995221       11111 1111111122     356667


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         164 SAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |..+ ..|-|.|..+.+.+..+.
T Consensus       184 SIyD-HSIfEAFSkvVQkLipqL  205 (347)
T KOG3887|consen  184 SIYD-HSIFEAFSKVVQKLIPQL  205 (347)
T ss_pred             eecc-hHHHHHHHHHHHHHhhhc
Confidence            7664 577788888888776553

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.62  E-value=8.5e-08  Score=77.20  Aligned_cols=57  Identities=18%  Similarity=0.288  Sum_probs=47.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ..++++|+|.||+|||||||+|.+... ....+.+|+|.....+..+..   +.++||||.
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~-~~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKV-AKTSNRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccc-eeeCCCCceecceEEEEcCCC---eEEecCCCc
Confidence            358899999999999999999999875 455666788888777776654   779999994

>cd01859 MJ1464 MJ1464

Probab=98.61  E-value=1.4e-07  Score=68.03  Aligned_cols=56  Identities=21%  Similarity=0.208  Sum_probs=40.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ...+++++|.+|+|||||++++.+... ..+.++.+.+.....+..+.   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHS-ASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCc-cccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            457889999999999999999997652 34455666555444333332   588999998

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>KOG0466|consensus

Probab=98.60  E-value=2.6e-08  Score=77.35  Aligned_cols=158  Identities=16%  Similarity=0.204  Sum_probs=99.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC---CCCcccc--ceeeeeEEEEE---------------------------Ee-
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS---FTSAFVS--TVGIDFKVKTV---------------------------FR-   65 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~---~~~~~~~--~~~~~~~~~~~---------------------------~~-   65 (221)
                      ...++|.-+|+...||||+++++++-.   |..+...  |+...|....+                           .. 
T Consensus        36 QATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~~~  115 (466)
T KOG0466|consen   36 QATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCDRP  115 (466)
T ss_pred             eeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcccC
Confidence            467999999999999999999987642   1111111  11111100000                           00 


Q ss_pred             --CCe---EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          66 --HDK---RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----EESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        66 --~~~---~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                        .++   -..+.|.|+||++-....+..-..-.|++++++..+.    |+..+++..    ++-.  .-..++++-||.
T Consensus       116 g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaa----veiM--~LkhiiilQNKi  189 (466)
T KOG0466|consen  116 GCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAA----VEIM--KLKHIIILQNKI  189 (466)
T ss_pred             CCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHH----HHHh--hhceEEEEechh
Confidence              111   0357899999998665544444455688888887765    455555543    2222  146688999999


Q ss_pred             CCCCCc--ccCHHHHHHHHHHh---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         137 DMEDER--VISFERGKHLAESL---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       137 Dl~~~~--~~~~~~~~~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      |+....  ....+....|....   +.+++++||.-..|++-+.++|.+.+
T Consensus       190 Dli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkI  240 (466)
T KOG0466|consen  190 DLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKI  240 (466)
T ss_pred             hhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcC
Confidence            995432  23344555665543   46999999999999999999887766

>KOG0467|consensus

Probab=98.58  E-value=2.2e-07  Score=79.99  Aligned_cols=119  Identities=19%  Similarity=0.194  Sum_probs=86.5

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCC--------------CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSF--------------TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      +.+.+..-+++++-+...|||||+..|....-              ..+...+.|+|...-.+..-.+++.+.++|+|||
T Consensus         3 ~~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspgh   82 (887)
T KOG0467|consen    3 QKGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGH   82 (887)
T ss_pred             CCCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCc
Confidence            34556778899999999999999999875421              1233445566666666655556788999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      -.|........+-+|+.++++|+...--.+... .+.+...   .+...++|+||+|
T Consensus        83 vdf~sevssas~l~d~alvlvdvvegv~~qt~~-vlrq~~~---~~~~~~lvinkid  135 (887)
T KOG0467|consen   83 VDFSSEVSSASRLSDGALVLVDVVEGVCSQTYA-VLRQAWI---EGLKPILVINKID  135 (887)
T ss_pred             cchhhhhhhhhhhcCCcEEEEeeccccchhHHH-HHHHHHH---ccCceEEEEehhh
Confidence            999988888899999999999988653322222 2222222   3678889999999

>KOG0085|consensus

Probab=98.56  E-value=3.3e-08  Score=73.92  Aligned_cols=127  Identities=20%  Similarity=0.274  Sum_probs=82.7

Q ss_pred             eCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhhC-CCCCcEEEEE
Q psy2300          65 RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTYS-WDNAQVILVG  133 (221)
Q Consensus        65 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~-~~~~p~ivv~  133 (221)
                      ++-..+.+.+.|.+|+..-+.-|.+.+.+.-.++|++.++.          ...+++-..++.-+-.+- -.+.++|+++
T Consensus       194 fdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFL  273 (359)
T KOG0085|consen  194 FDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFL  273 (359)
T ss_pred             cchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEe
Confidence            34445667889999988777778888888777777666542          334444444444443221 2478999999


Q ss_pred             eCCCCCCCc----------------ccCHHHHHHHHHHh----C------CeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         134 NKCDMEDER----------------VISFERGKHLAESL----G------VEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       134 nK~Dl~~~~----------------~~~~~~~~~~~~~~----~------~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      ||.|+-+..                ..+...+++|....    +      +.-..+.|++-+||.-+|.++.+.+++...
T Consensus       274 NKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~L  353 (359)
T KOG0085|consen  274 NKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNL  353 (359)
T ss_pred             chhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhhh
Confidence            999973321                12223344444332    2      223578899999999999999999988876


Q ss_pred             cccC
Q psy2300         188 ESLD  191 (221)
Q Consensus       188 ~~~~  191 (221)
                      +.++
T Consensus       354 kE~N  357 (359)
T KOG0085|consen  354 KEYN  357 (359)
T ss_pred             Hhhc
Confidence            5543

>KOG0448|consensus

Probab=98.55  E-value=1.8e-06  Score=73.75  Aligned_cols=145  Identities=18%  Similarity=0.281  Sum_probs=82.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccce----------eee-----------------------------
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTV----------GID-----------------------------   57 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~~----------~~~-----------------------------   57 (221)
                      .+...||++.|..++||||++|+++..+..++ ..+++          |..                             
T Consensus       106 ~r~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~  185 (749)
T KOG0448|consen  106 ARRHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKD  185 (749)
T ss_pred             hhcccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccc
Confidence            34678999999999999999999886543221 11110          000                             


Q ss_pred             ---eEEEEEEeCCeE-----EEEEEEeCCCcc---cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCC
Q psy2300          58 ---FKVKTVFRHDKR-----VKLQIWDTAGQE---RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN  126 (221)
Q Consensus        58 ---~~~~~~~~~~~~-----~~~~i~D~~g~~---~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~  126 (221)
                         .....+..+...     -.+.+.|.||-+   ....-...+...+|++|||..+.+...... .+++.....   .+
T Consensus       186 ~~~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~---~K  261 (749)
T KOG0448|consen  186 LGAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSE---EK  261 (749)
T ss_pred             cCcceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhc---cC
Confidence               001111111111     135688889844   333334556789999999999876543322 234444433   24


Q ss_pred             CcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--------CeEEEEecC
Q psy2300         127 AQVILVGNKCDMEDERVISFERGKHLAESLG--------VEFFETSAK  166 (221)
Q Consensus       127 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~~Sa~  166 (221)
                      ..+.|+.||.|....+....+++..-...+.        -.+|++|++
T Consensus       262 pniFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  262 PNIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             CcEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            4577777899986554433333333322221        247889965

>cd01856 YlqF YlqF

Probab=98.53  E-value=2.9e-07  Score=67.53  Aligned_cols=89  Identities=19%  Similarity=0.100  Sum_probs=60.1

Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK  166 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  166 (221)
                      ....+..+|++++|+|+.++...... .+...+     .+.|.++|+||+|+.+....  ....++.+..+..++.+|++
T Consensus        13 ~~~~i~~aD~il~v~D~~~~~~~~~~-~i~~~~-----~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa~   84 (171)
T cd01856          13 IKEKLKLVDLVIEVRDARIPLSSRNP-LLEKIL-----GNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNAK   84 (171)
T ss_pred             HHHHHhhCCEEEEEeeccCccCcCCh-hhHhHh-----cCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEECC
Confidence            34567899999999999876432221 122211     25799999999999543211  11212223334578999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDIIC  183 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~  183 (221)
                      ++.|++++.+.+...+.
T Consensus        85 ~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          85 SGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             CcccHHHHHHHHHHHHH
Confidence            99999999999888764

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.51  E-value=4.3e-07  Score=64.42  Aligned_cols=75  Identities=16%  Similarity=0.145  Sum_probs=51.7

Q ss_pred             hhccCCcEEEEEEECCChhhHH--HHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFT--SIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK  166 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~--~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  166 (221)
                      ..+..+|++++|+|+.++.+..  .+..|+...   . .+.|+++|+||+|+.....  ......+.+..+..++++||.
T Consensus         7 ~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~   80 (141)
T cd01857           7 RVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSAL   80 (141)
T ss_pred             HHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEec
Confidence            4578999999999998876543  333333322   1 4789999999999854322  223444555566789999999


Q ss_pred             CCC
Q psy2300         167 DNV  169 (221)
Q Consensus       167 ~~~  169 (221)
                      ++.
T Consensus        81 ~~~   83 (141)
T cd01857          81 KEN   83 (141)
T ss_pred             CCC
Confidence            875

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.51  E-value=2.9e-06  Score=64.93  Aligned_cols=86  Identities=14%  Similarity=-0.004  Sum_probs=53.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeeEEEEEEeC---CeEEEEEEEeCCCccccc------ccch
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD--SFTSAFVSTVGIDFKVKTVFRH---DKRVKLQIWDTAGQERYR------TITT   88 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~i~D~~g~~~~~------~~~~   88 (221)
                      +..-|+|+|++++|||+|+|.|.+.  .|..... ....|..+......   +....+.++||+|.....      ....
T Consensus         6 ~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~-~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~   84 (224)
T cd01851           6 PVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDT-SQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARL   84 (224)
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCC-CCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHH
Confidence            4677999999999999999999998  5532211 11222222222111   134679999999954322      1222


Q ss_pred             hhccC--CcEEEEEEECCCh
Q psy2300          89 AYYRG--AMGFILMYDVTNE  106 (221)
Q Consensus        89 ~~~~~--~d~vi~v~d~~~~  106 (221)
                      ..+..  ++++||..+....
T Consensus        85 ~~l~~llss~~i~n~~~~~~  104 (224)
T cd01851          85 FALATLLSSVLIYNSWETIL  104 (224)
T ss_pred             HHHHHHHhCEEEEeccCccc
Confidence            33344  8899988887643

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.50  E-value=1.2e-05  Score=57.12  Aligned_cols=146  Identities=17%  Similarity=0.233  Sum_probs=76.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCC-Ccc--------------cc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA-GQE--------------RY-   83 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-g~~--------------~~-   83 (221)
                      ..++|++.|+||+|||||+.++.+..-... ..--  .+....+..++..+-|.+.|+. |..              .| 
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g-~kvg--Gf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~   80 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKG-YKVG--GFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYG   80 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcC-ceee--eEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEE
Confidence            468999999999999999999875431110 1111  2333333344555666666665 210              11 


Q ss_pred             ------c----ccchhhccCCcEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHH
Q psy2300          84 ------R----TITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHL  152 (221)
Q Consensus        84 ------~----~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~  152 (221)
                            .    ......+..||++++  |=--+  ++.... +...+......+.|++..+.+.+. +      -..++ 
T Consensus        81 V~v~~le~i~~~al~rA~~~aDvIII--DEIGp--MElks~~f~~~ve~vl~~~kpliatlHrrsr-~------P~v~~-  148 (179)
T COG1618          81 VNVEGLEEIAIPALRRALEEADVIII--DEIGP--MELKSKKFREAVEEVLKSGKPLIATLHRRSR-H------PLVQR-  148 (179)
T ss_pred             eeHHHHHHHhHHHHHHHhhcCCEEEE--ecccc--hhhccHHHHHHHHHHhcCCCcEEEEEecccC-C------hHHHH-
Confidence                  1    111223355676654  42222  222222 444444444468888888876653 1      11222 


Q ss_pred             HHHhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         153 AESLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       153 ~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .+..+.-+++   .+.+|-+.+++.+.+.+-
T Consensus       149 ik~~~~v~v~---lt~~NR~~i~~~Il~~L~  176 (179)
T COG1618         149 IKKLGGVYVF---LTPENRNRILNEILSVLK  176 (179)
T ss_pred             hhhcCCEEEE---EccchhhHHHHHHHHHhc
Confidence            2333333333   566677788887777653

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.47  E-value=1.7e-06  Score=80.74  Aligned_cols=112  Identities=21%  Similarity=0.222  Sum_probs=66.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCcc----ccc--eeeeeEEEEEEeCCeEEEEEEEeCCCcc--------cccccchh
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAF----VST--VGIDFKVKTVFRHDKRVKLQIWDTAGQE--------RYRTITTA   89 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~----~~~--~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~   89 (221)
                      .+|+|++|+||||+|..- +..++-..    ..+  .+-+.+ -...+.++   -.++||+|.-        .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~-c~wwf~~~---avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRN-CDWWFTDE---AVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcc-cceEecCC---EEEEcCCCccccCCCcccccHHHHHH
Confidence            689999999999999876 43443211    011  111111 11222222   3489999921        22233544


Q ss_pred             hc---------cCCcEEEEEEECCC-----hhhH----HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          90 YY---------RGAMGFILMYDVTN-----EESF----TSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        90 ~~---------~~~d~vi~v~d~~~-----~~s~----~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ++         +..++||+++|+.+     ++..    ..++..+..+.....-..|++|++||+|+..
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhhc
Confidence            43         45899999999764     2211    2334445555555567899999999999853

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0464|consensus

Probab=98.47  E-value=5.3e-08  Score=78.63  Aligned_cols=121  Identities=19%  Similarity=0.153  Sum_probs=94.1

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcC--------CCCC--------ccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADD--------SFTS--------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~--------~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      .+....-+|.++.+-.+||||.-.+++.-        .+..        ......|++.....+.+++++.++.++||||
T Consensus        32 p~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpg  111 (753)
T KOG0464|consen   32 PAIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPG  111 (753)
T ss_pred             CchhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCC
Confidence            33344567999999999999998887632        1111        1122347788888899999999999999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +-.|.-..+..++--|+++.|||++-.-.-+.+..|.+.-+    -+.|...++||+|.-.
T Consensus       112 hvdf~leverclrvldgavav~dasagve~qtltvwrqadk----~~ip~~~finkmdk~~  168 (753)
T KOG0464|consen  112 HVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQADK----FKIPAHCFINKMDKLA  168 (753)
T ss_pred             cceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhccc----cCCchhhhhhhhhhhh
Confidence            99998888889999999999999987665566666766533    2799999999999743

>KOG0447|consensus

Probab=98.44  E-value=6.3e-06  Score=69.08  Aligned_cols=137  Identities=20%  Similarity=0.218  Sum_probs=85.1

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-c------------------------------cccc-------------
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTS-A------------------------------FVST-------------   53 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~------------------------------~~~~-------------   53 (221)
                      .+...+|+|||+.++||||.+..+......+ .                              +.-|             
T Consensus       305 ~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~E  384 (980)
T KOG0447|consen  305 QDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIE  384 (980)
T ss_pred             cccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHHH
Confidence            3567899999999999999998876432111 0                              0000             


Q ss_pred             ----------eeeeeEEEEEEeCCeE-EEEEEEeCCCc-------------ccccccchhhccCCcEEEEEEECCChhhH
Q psy2300          54 ----------VGIDFKVKTVFRHDKR-VKLQIWDTAGQ-------------ERYRTITTAYYRGAMGFILMYDVTNEESF  109 (221)
Q Consensus        54 ----------~~~~~~~~~~~~~~~~-~~~~i~D~~g~-------------~~~~~~~~~~~~~~d~vi~v~d~~~~~s~  109 (221)
                                -+++-.++.+.+.+.+ -+..+.|.||.             +....+...+..+.+++|+|+--..-+..
T Consensus       385 ~RMr~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAE  464 (980)
T KOG0447|consen  385 LRMRKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAE  464 (980)
T ss_pred             HHHHhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchh
Confidence                      0111123334444433 35778999992             23345566788999999999953332211


Q ss_pred             HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh
Q psy2300         110 TSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL  156 (221)
Q Consensus       110 ~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~  156 (221)
                      .  ...-..+......+...|+|++|.|+.+....++..++......
T Consensus       465 R--SnVTDLVsq~DP~GrRTIfVLTKVDlAEknlA~PdRI~kIleGK  509 (980)
T KOG0447|consen  465 R--SIVTDLVSQMDPHGRRTIFVLTKVDLAEKNVASPSRIQQIIEGK  509 (980)
T ss_pred             h--hhHHHHHHhcCCCCCeeEEEEeecchhhhccCCHHHHHHHHhcC
Confidence            1  12223333444458889999999999877777777777766544

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.42  E-value=6.2e-07  Score=64.68  Aligned_cols=57  Identities=21%  Similarity=0.233  Sum_probs=39.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ....+++++|.+|+|||||+|.+.+..... .....+++........+   ..+.++||||
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~-~~~~~~~t~~~~~~~~~---~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLK-VGNVPGTTTSQQEVKLD---NKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHcccccc-ccCCCCcccceEEEEec---CCEEEEECCC
Confidence            356889999999999999999999865311 22223444444444333   3488999998

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.41  E-value=2.2e-06  Score=67.76  Aligned_cols=91  Identities=19%  Similarity=0.119  Sum_probs=61.4

Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK  166 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  166 (221)
                      ....+..+|++++|+|+.++.+..+. .+...+     .+.|+++|+||+|+.+....  .......+..+.+++.+|++
T Consensus        15 ~~~~l~~aDvVl~V~Dar~p~~~~~~-~i~~~l-----~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~iSa~   86 (276)
T TIGR03596        15 IKEKLKLVDVVIEVLDARIPLSSRNP-MIDEIR-----GNKPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAINAK   86 (276)
T ss_pred             HHHHHhhCCEEEEEEeCCCCCCCCCh-hHHHHH-----CCCCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEEECC
Confidence            34567899999999999876443221 111222     26899999999999542211  11112223345678999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2300         167 DNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++.|++++.+.+.+.+.+.
T Consensus        87 ~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        87 KGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             CcccHHHHHHHHHHHHHHh
Confidence            9999999999988876543

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.40  E-value=2e-06  Score=70.36  Aligned_cols=83  Identities=14%  Similarity=0.195  Sum_probs=59.1

Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-HhCCeEEEEecCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAE-SLGVEFFETSAKDNV  169 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  169 (221)
                      ..++|.+++|+++..+-....+..++..+...   +.+.+||+||+||.+...   +....+.. ..+.+++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~---~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES---GAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc---CCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCCCc
Confidence            57899999999997444445566666666554   788899999999965311   11122221 346789999999999


Q ss_pred             CHHHHHHHHH
Q psy2300         170 NVKGVFERLV  179 (221)
Q Consensus       170 gi~~l~~~i~  179 (221)
                      |+++|..+|.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999988874

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.40  E-value=4e-07  Score=65.46  Aligned_cols=59  Identities=19%  Similarity=0.188  Sum_probs=34.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC--ccc----cceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS--AFV----STVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~--~~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      -.++|+|++|||||||+|.|.......  +..    .-.-+|.....+..+...   .++||||...+
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~---~iIDTPGf~~~  100 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGG---YIIDTPGFRSF  100 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSE---EEECSHHHHT-
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCc---EEEECCCCCcc
Confidence            467999999999999999999874211  111    111223334444444443   48899996544

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.39  E-value=3.4e-06  Score=67.77  Aligned_cols=154  Identities=17%  Similarity=0.167  Sum_probs=86.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCC---------c-c-----------ccceeeeeEEEEEE-------------eC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTS---------A-F-----------VSTVGIDFKVKTVF-------------RH   66 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~---------~-~-----------~~~~~~~~~~~~~~-------------~~   66 (221)
                      .-.|+|+|++|+||||++..+.......         . +           ....+..+......             ..
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~  193 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK  193 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence            4578999999999999999876431100         0 0           00011111111000             01


Q ss_pred             CeEEEEEEEeCCCccccccc----chhh--------ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEe
Q psy2300          67 DKRVKLQIWDTAGQERYRTI----TTAY--------YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN  134 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~----~~~~--------~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~n  134 (221)
                      ...+.+.++||+|.......    ...+        -...+..++|+|++...  ..+.+. ......   -.+--+|+|
T Consensus       194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~~a-~~f~~~---~~~~giIlT  267 (318)
T PRK10416        194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALSQA-KAFHEA---VGLTGIILT  267 (318)
T ss_pred             hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHHHH-HHHHhh---CCCCEEEEE
Confidence            13367899999996432211    0111        13467889999998532  222221 111111   245688999


Q ss_pred             CCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       135 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |.|....    .-.+...+...++|+..++  +|++++++...=.+.+.+..
T Consensus       268 KlD~t~~----~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~~~~~~~~~~l  313 (318)
T PRK10416        268 KLDGTAK----GGVVFAIADELGIPIKFIG--VGEGIDDLQPFDAEEFVDAL  313 (318)
T ss_pred             CCCCCCC----ccHHHHHHHHHCCCEEEEe--CCCChhhCccCCHHHHHHHH
Confidence            9995332    1234455566789998888  78899887665555555443

>PRK13796 GTPase YqeH; Provisional

Probab=98.35  E-value=2.9e-06  Score=69.60  Aligned_cols=84  Identities=21%  Similarity=0.359  Sum_probs=57.2

Q ss_pred             ccCCc-EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH----HHHHHhCC---eEEE
Q psy2300          91 YRGAM-GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK----HLAESLGV---EFFE  162 (221)
Q Consensus        91 ~~~~d-~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~~~~~---~~~~  162 (221)
                      +...+ ++++|+|+.|..     ..|...+.+.. .+.|+++|+||+|+... ....+...    .+++..++   .++.
T Consensus        66 i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~g~~~~~v~~  138 (365)
T PRK13796         66 IGDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKELGLRPVDVVL  138 (365)
T ss_pred             hcccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhcCCCcCcEEE
Confidence            34455 999999998743     12344444432 36899999999999542 22233333    33445565   5899


Q ss_pred             EecCCCCCHHHHHHHHHHH
Q psy2300         163 TSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~  181 (221)
                      +||+++.|++++++.|.+.
T Consensus       139 vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        139 ISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            9999999999999998664

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.32  E-value=1.5e-05  Score=62.74  Aligned_cols=104  Identities=12%  Similarity=0.062  Sum_probs=61.9

Q ss_pred             EEEEEEEeCCCcccccccch-------hh-----ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          69 RVKLQIWDTAGQERYRTITT-------AY-----YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~-------~~-----~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                      ++.+.++||+|.........       ..     -..+|.+++|+|++-..  ..+.. ...+.+.   -.+.-+|+||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~~-~~~f~~~---~~~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALEQ-AKVFNEA---VGLTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHHH-HHHHHhh---CCCCEEEEEcc
Confidence            36788999999654322211       11     12489999999997432  22222 1222221   23578899999


Q ss_pred             CCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       137 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      |.....    -.........++|+.+++  +|++++++..+=.+.+.+
T Consensus       228 De~~~~----G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~~~~~~~~~  269 (272)
T TIGR00064       228 DGTAKG----GIILSIAYELKLPIKFIG--VGEKIDDLAPFDADWFVE  269 (272)
T ss_pred             CCCCCc----cHHHHHHHHHCcCEEEEe--CCCChHhCccCCHHHHHH
Confidence            974432    234444556688888888  788888776554444433

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.32  E-value=4.1e-06  Score=66.61  Aligned_cols=91  Identities=20%  Similarity=0.156  Sum_probs=61.7

Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK  166 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  166 (221)
                      ....+..+|++++|+|+.++.+..+. .+...+     .+.|+++|+||+|+.+...  .+....+....+.+++.+|++
T Consensus        18 l~~~l~~aDvIL~VvDar~p~~~~~~-~l~~~~-----~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa~   89 (287)
T PRK09563         18 IKENLKLVDVVIEVLDARIPLSSENP-MIDKII-----GNKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINAK   89 (287)
T ss_pred             HHHHhhhCCEEEEEEECCCCCCCCCh-hHHHHh-----CCCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEECC
Confidence            34467899999999999876543221 111222     2689999999999853211  112222233445678999999


Q ss_pred             CCCCHHHHHHHHHHHHHHh
Q psy2300         167 DNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++.|++++.+.+.+.+.+.
T Consensus        90 ~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         90 KGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             CcccHHHHHHHHHHHHHHH
Confidence            9999999999988876544

>PRK14974 cell division protein FtsY; Provisional

Probab=98.32  E-value=1.2e-06  Score=70.63  Aligned_cols=105  Identities=12%  Similarity=0.066  Sum_probs=62.1

Q ss_pred             EEEEEEeCCCcccccc-cc---hhh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRT-IT---TAY--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-~~---~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.++||+|...... ++   ..+  ....|.+++|+|+......   ......+...   -..--+|+||.|....-.
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~---~~~a~~f~~~---~~~~giIlTKlD~~~~~G  296 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDA---VEQAREFNEA---VGIDGVILTKVDADAKGG  296 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhH---HHHHHHHHhc---CCCCEEEEeeecCCCCcc
Confidence            4688999999653221 11   111  2357889999998754321   1111222221   245678899999743322


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                          .+...+...+.|+.+++  +|.+++++..+=.+.+.++.
T Consensus       297 ----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~~~~~~v~~l  333 (336)
T PRK14974        297 ----AALSIAYVIGKPILFLG--VGQGYDDLIPFDPDWFVDKL  333 (336)
T ss_pred             ----HHHHHHHHHCcCEEEEe--CCCChhhcccCCHHHHHHHH
Confidence                23344455688988887  79999888766555555443

>KOG0459|consensus

Probab=98.31  E-value=7.2e-07  Score=71.88  Aligned_cols=162  Identities=15%  Similarity=0.094  Sum_probs=99.2

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCC--CC---------------------------CccccceeeeeEEEEEEe
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDS--FT---------------------------SAFVSTVGIDFKVKTVFR   65 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~---------------------------~~~~~~~~~~~~~~~~~~   65 (221)
                      ..+....+++.|+|+..+||||+-..+....  +.                           .......+.+...-...+
T Consensus        73 ~~~pk~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~F  152 (501)
T KOG0459|consen   73 GEYPKEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYF  152 (501)
T ss_pred             cCCCCCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEE
Confidence            3344567999999999999999866654210  00                           000011123333333334


Q ss_pred             CCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCC
Q psy2300          66 HDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        66 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~  141 (221)
                      .-...++++.|.||+..|...+..-..+||+.++|+++...+   .|+.--+......... ..-...|+++||+|-+..
T Consensus       153 Ete~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~gv~~lVv~vNKMddPtv  232 (501)
T KOG0459|consen  153 ETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKHLIVLINKMDDPTV  232 (501)
T ss_pred             EecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhhccceEEEEEEeccCCcc
Confidence            444467999999999999988888889999999999985422   3332222222221111 124568999999997543


Q ss_pred             cc--cC----HHHHHHHHHHhC------CeEEEEecCCCCCHHHHHH
Q psy2300         142 RV--IS----FERGKHLAESLG------VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       142 ~~--~~----~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ..  ..    .+....|.+..+      ..++++|..+|.++.+...
T Consensus       233 nWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  233 NWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             CcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            21  11    122334444333      4589999999999988664

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.28  E-value=1.9e-06  Score=70.59  Aligned_cols=57  Identities=18%  Similarity=0.271  Sum_probs=40.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC----CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT----SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      .+|+|+|.+|+|||||+|+|+.....    ....+.+++|.....+..+..   +.++||||-.
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCC
Confidence            58999999999999999999975421    123344566666666655322   5699999953

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>PRK13796 GTPase YqeH; Provisional

Probab=98.28  E-value=1.4e-06  Score=71.54  Aligned_cols=57  Identities=18%  Similarity=0.236  Sum_probs=40.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC----CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT----SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      .+++|+|.+|+|||||||+|......    ....+.+|+|.....+..+..   ..++||||-.
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            47999999999999999999864311    113344567777776666543   3699999953

>KOG1424|consensus

Probab=98.26  E-value=1.4e-06  Score=72.30  Aligned_cols=57  Identities=21%  Similarity=0.255  Sum_probs=48.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ..+.|++||.||+||||+||.|.+.+. ..+..|+|.|....++.+..   .+.+.|+||-
T Consensus       313 ~~vtVG~VGYPNVGKSSTINaLvG~Kk-VsVS~TPGkTKHFQTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  313 DVVTVGFVGYPNVGKSSTINALVGRKK-VSVSSTPGKTKHFQTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             ceeEEEeecCCCCchhHHHHHHhcCce-eeeecCCCCcceeEEEEcCC---CceecCCCCc
Confidence            369999999999999999999999984 56778899998888887654   3678999993

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.26  E-value=1.5e-05  Score=66.23  Aligned_cols=134  Identities=13%  Similarity=0.084  Sum_probs=70.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC----CCCCc------c-----------ccceeeeeEEEEEEeC-------------
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD----SFTSA------F-----------VSTVGIDFKVKTVFRH-------------   66 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~----~~~~~------~-----------~~~~~~~~~~~~~~~~-------------   66 (221)
                      ...|+++|.+|+||||++.+|...    .....      +           ....++.+.......+             
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            467899999999999999988621    10000      0           0011111111110001             


Q ss_pred             CeEEEEEEEeCCCccccccc-c---hh--hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          67 DKRVKLQIWDTAGQERYRTI-T---TA--YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~-~---~~--~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ...+.+.|+||+|....... .   ..  .....+.+++|+|++-.....+   ....+..   .-.+--+|+||.|-..
T Consensus       180 ~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~---~a~~F~~---~~~~~g~IlTKlD~~a  253 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEA---QAKAFKD---SVDVGSVIITKLDGHA  253 (429)
T ss_pred             hCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHH---HHHHHHh---ccCCcEEEEECccCCC
Confidence            12467899999995433211 1   11  1235788999999875432221   2222222   1356788999999743


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEEe
Q psy2300         141 ERVISFERGKHLAESLGVEFFETS  164 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~S  164 (221)
                      .-    -.+.......+.|+.+++
T Consensus       254 rg----G~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       254 KG----GGALSAVAATKSPIIFIG  273 (429)
T ss_pred             Cc----cHHhhhHHHHCCCeEEEc
Confidence            21    112333444566655443

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.25  E-value=1.4e-05  Score=62.87  Aligned_cols=96  Identities=15%  Similarity=0.167  Sum_probs=69.9

Q ss_pred             cccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEE
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFE  162 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  162 (221)
                      ..+.+....+.|-+++|+++.+|+ +...+..++-..+..   +...+|++||+|+.+......++........+.+++.
T Consensus        70 n~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~---gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~  146 (301)
T COG1162          70 NVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAG---GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLF  146 (301)
T ss_pred             CceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHc---CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEE
Confidence            344444556688899999988876 444555555555443   7888888999999765544334566677778999999


Q ss_pred             EecCCCCCHHHHHHHHHHHH
Q psy2300         163 TSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +|+++++|++++.+++...+
T Consensus       147 ~s~~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         147 VSAKNGDGLEELAELLAGKI  166 (301)
T ss_pred             ecCcCcccHHHHHHHhcCCe
Confidence            99999999999988776543

>PRK12288 GTPase RsgA; Reviewed

Probab=98.24  E-value=2.4e-06  Score=69.44  Aligned_cols=58  Identities=17%  Similarity=0.210  Sum_probs=36.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCC-ccccc-----eeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTS-AFVST-----VGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~-----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ++|+|.+|+|||||||+|+...... ...+.     .-+|....-+.+++..   .++||||...+.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFG  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCccc
Confidence            7999999999999999999764211 11111     0123333333443332   389999976554

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.23  E-value=6.9e-06  Score=59.42  Aligned_cols=21  Identities=24%  Similarity=0.362  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++++|..|+|||||++++...
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            679999999999999998765

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.23  E-value=2.2e-06  Score=69.76  Aligned_cols=55  Identities=24%  Similarity=0.234  Sum_probs=35.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCcccccee-------eeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG-------IDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      ++|+|.+|+|||||||+|+...... .....+       +|.....+..++..   .++||||...
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~~~~-t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~  236 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDVELR-VGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQ  236 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCccccc-cccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccc
Confidence            7999999999999999999764211 111112       34444444444333   5899999754

>KOG0465|consensus

Probab=98.23  E-value=3.3e-06  Score=71.38  Aligned_cols=120  Identities=19%  Similarity=0.185  Sum_probs=87.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC-C---C------------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF-T---S------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~-~---~------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      +..-+|.+.-+-.+||||+-.+.+...- .   .            ......+++.......+.+.++++.++|||||-.
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvD  116 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVD  116 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCcee
Confidence            3456789999999999999988654210 0   0            1112235556666666666788999999999998


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      |..-.+..++--|+.++|+++...-.-+....|.++ .++   +.|.+.++||+|...+.
T Consensus       117 FT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~rQ~-~ry---~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  117 FTFEVERALRVLDGAVLVLDAVAGVESQTETVWRQM-KRY---NVPRICFINKMDRMGAS  172 (721)
T ss_pred             EEEEehhhhhhccCeEEEEEcccceehhhHHHHHHH-Hhc---CCCeEEEEehhhhcCCC
Confidence            888788889999999999998876544555556554 333   89999999999986553

>PRK13695 putative NTPase; Provisional

Probab=98.20  E-value=6.2e-05  Score=55.30  Aligned_cols=48  Identities=10%  Similarity=0.100  Sum_probs=31.0

Q ss_pred             CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         125 DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       125 ~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .+.|++++.+|...       .....+.....+..++.+   +.+|-+++.+.+.+.+
T Consensus       125 ~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~---~~~~r~~~~~~~~~~~  172 (174)
T PRK13695        125 SEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL---TPENRDSLPFEILNRL  172 (174)
T ss_pred             CCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE---cchhhhhHHHHHHHHH
Confidence            47899999998532       122334445556667766   4567778888777754

>KOG4273|consensus

Probab=98.16  E-value=4.1e-05  Score=58.28  Aligned_cols=158  Identities=21%  Similarity=0.320  Sum_probs=98.0

Q ss_pred             eEEEEEcCCCC--CHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEE----EEEEEeCCCcccccccchhhccCCc
Q psy2300          22 FKLLIIGNSSV--GKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV----KLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        22 ~~i~vvG~~~~--GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      ..++|+|..|+  ||-+|+.+|....|..+..+...+.++..++  +++.+    .+.+.-.. .+.+-. .........
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hgwti--d~kyysadi~lcishic-de~~lp-n~~~a~pl~   80 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHGWTI--DNKYYSADINLCISHIC-DEKFLP-NAEIAEPLQ   80 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeeeceEe--cceeeecceeEEeeccc-chhccC-Cccccccee
Confidence            46789999999  9999999999988877666655555555555  33332    22222111 111111 112234567


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC---------------------------c------
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE---------------------------R------  142 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~---------------------------~------  142 (221)
                      ++++|||.+....+..+..|+.......  =-.++.++||.|....                           .      
T Consensus        81 a~vmvfdlse~s~l~alqdwl~htdins--fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisete  158 (418)
T KOG4273|consen   81 AFVMVFDLSEKSGLDALQDWLPHTDINS--FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETE  158 (418)
T ss_pred             eEEEEEeccchhhhHHHHhhcccccccc--chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccc
Confidence            8999999999988888888877543221  1234566788885210                           0      


Q ss_pred             -----------ccCHHHHHHHHHHhCCeEEEEecCCC------------CCHHHHHHHHHHHHHHh
Q psy2300         143 -----------VISFERGKHLAESLGVEFFETSAKDN------------VNVKGVFERLVDIICDK  185 (221)
Q Consensus       143 -----------~~~~~~~~~~~~~~~~~~~~~Sa~~~------------~gi~~l~~~i~~~~~~~  185 (221)
                                 -.......+|+..+++.+++.++.+.            .|+..+|.++...+-..
T Consensus       159 gssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmwpg  224 (418)
T KOG4273|consen  159 GSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMWPG  224 (418)
T ss_pred             cccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccCcc
Confidence                       01122356778888899998888543            56777777766555433

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.12  E-value=6.2e-06  Score=64.01  Aligned_cols=57  Identities=23%  Similarity=0.227  Sum_probs=35.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC--cccc----ceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTS--AFVS----TVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~--~~~~----~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      .++|+|.+|+|||||||+|.......  +...    ...+|.....+...+ .   .++||||...+
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~-~---~liDtPG~~~~  184 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG-G---LIADTPGFNEF  184 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC-c---EEEeCCCcccc
Confidence            68999999999999999999764211  1111    111333333343332 2   59999997544

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.09  E-value=6.6e-06  Score=64.65  Aligned_cols=59  Identities=17%  Similarity=0.141  Sum_probs=38.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC------CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF------TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ..+++|.+|+|||||+|+|....-      ......-.-+|.....+.++++++   +.||||..++.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG~---iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGGW---IIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCCE---EEeCCCCCccC
Confidence            568999999999999999986421      111111122445555666654544   88999976554

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.02  E-value=3e-05  Score=56.60  Aligned_cols=135  Identities=19%  Similarity=0.260  Sum_probs=61.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeC-CCc---------------------
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT-AGQ---------------------   80 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~g~---------------------   80 (221)
                      +|++.|++|+|||||+++++..-- ....+..|  +......-++..+-+.+.|. .|.                     
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~-~~~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~   77 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELK-KKGLPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVD   77 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHH-HTCGGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhh-ccCCccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEc
Confidence            689999999999999999875431 11112222  22222223333444444454 221                     


Q ss_pred             -ccccc----cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCC-CCCCCcccCHHHHHHHHH
Q psy2300          81 -ERYRT----ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC-DMEDERVISFERGKHLAE  154 (221)
Q Consensus        81 -~~~~~----~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~-Dl~~~~~~~~~~~~~~~~  154 (221)
                       +.+..    .....+..+|  ++|+|=--+..+ ....|...+...-..+.|++.++-+. +.        .....+..
T Consensus        78 ~e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl-~~~~F~~~v~~~l~s~~~vi~vv~~~~~~--------~~l~~i~~  146 (168)
T PF03266_consen   78 LESFEEIGLPALRNALSSSD--LIVIDEIGKMEL-KSPGFREAVEKLLDSNKPVIGVVHKRSDN--------PFLEEIKR  146 (168)
T ss_dssp             HHHHHCCCCCCCHHHHHCCH--EEEE---STTCC-C-CHHHHHHHHHHCTTSEEEEE--SS--S--------CCHHHHHT
T ss_pred             HHHHHHHHHHHHHhhcCCCC--EEEEeccchhhh-cCHHHHHHHHHHHcCCCcEEEEEecCCCc--------HHHHHHHh
Confidence             11111    1111123455  666662211100 01123333333333478888888766 32        12344455


Q ss_pred             HhCCeEEEEecCCCCCH
Q psy2300         155 SLGVEFFETSAKDNVNV  171 (221)
Q Consensus       155 ~~~~~~~~~Sa~~~~gi  171 (221)
                      ..+..++.++..+..-+
T Consensus       147 ~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  147 RPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTSEEEE--TTTCCCH
T ss_pred             CCCcEEEEeChhHHhhH
Confidence            56788888877665544

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.01  E-value=3e-05  Score=71.35  Aligned_cols=111  Identities=23%  Similarity=0.255  Sum_probs=62.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCc------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcc--------cccccchh
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSA------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE--------RYRTITTA   89 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~   89 (221)
                      -+|+|++|+||||++..- +..|+-.      .....+ |.+.- ..+..   .-.++||.|..        .....|..
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~g-T~~cd-wwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~  201 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPG-TRNCD-WWFTD---EAVLIDTAGRYITQDSADEVDRAEWLG  201 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhccccccCCC-CcccC-ccccc---ceEEEcCCcceecccCcchhhHHHHHH
Confidence            589999999999998643 2222211      001111 11111 22222   24588998821        22334443


Q ss_pred             h---------ccCCcEEEEEEECCC-----hh-hHHH---HHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          90 Y---------YRGAMGFILMYDVTN-----EE-SFTS---IQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        90 ~---------~~~~d~vi~v~d~~~-----~~-s~~~---~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +         .+..++||+.+|+.+     +. ....   ++.-+.++.....-..|++|++||.|+..
T Consensus       202 fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         202 FLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence            3         356899999999764     21 1122   22333344444456899999999999854

>KOG3859|consensus

Probab=98.01  E-value=2.2e-05  Score=60.65  Aligned_cols=119  Identities=22%  Similarity=0.352  Sum_probs=71.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc----cceeeeeEEEEEEeCCeEEEEEEEeCCC-------cccccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV----STVGIDFKVKTVFRHDKRVKLQIWDTAG-------QERYRT   85 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~g-------~~~~~~   85 (221)
                      ..-..++|+.||..|.|||||+..|.+-.|.....    |........+.+.-.+..+.+++.||.|       .+.|..
T Consensus        38 ~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~  117 (406)
T KOG3859|consen   38 SQGFCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKP  117 (406)
T ss_pred             hcCceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccch
Confidence            33467999999999999999999999987654322    2223223333333345567889999988       112221


Q ss_pred             cc-------hhh---------------ccCCcEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          86 IT-------TAY---------------YRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        86 ~~-------~~~---------------~~~~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +.       +.|               -...++++|.+..+. .++..+.- .+..+.    ..+.+|-|+.|.|...
T Consensus       118 iVdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTG-H~LKslDLvtmk~Ld----skVNIIPvIAKaDtis  190 (406)
T KOG3859|consen  118 IVDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTG-HSLKSLDLVTMKKLD----SKVNIIPVIAKADTIS  190 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCC-cchhHHHHHHHHHHh----hhhhhHHHHHHhhhhh
Confidence            11       111               134677888887764 33444433 222222    2566777888998643

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.99  E-value=6.3e-05  Score=61.58  Aligned_cols=146  Identities=14%  Similarity=0.101  Sum_probs=74.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC--C-ccccceeeee------------------EEEEEE---------eCCeEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT--S-AFVSTVGIDF------------------KVKTVF---------RHDKRVK   71 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~--~-~~~~~~~~~~------------------~~~~~~---------~~~~~~~   71 (221)
                      -.++|+|++|+||||++.+|......  . ...-....+.                  ......         .......
T Consensus       138 ~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~~D  217 (374)
T PRK14722        138 GVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRNKH  217 (374)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcCCC
Confidence            46889999999999999998753210  0 0000011100                  011110         0112346


Q ss_pred             EEEEeCCCcccccccch---hhc---cCCcEEEEEEECCCh-hhHHHHHHHHHHHHhhCC-C-CCcEEEEEeCCCCCCCc
Q psy2300          72 LQIWDTAGQERYRTITT---AYY---RGAMGFILMYDVTNE-ESFTSIQDWITQIKTYSW-D-NAQVILVGNKCDMEDER  142 (221)
Q Consensus        72 ~~i~D~~g~~~~~~~~~---~~~---~~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~-~-~~p~ivv~nK~Dl~~~~  142 (221)
                      +.++||+|.........   ..+   ....-.++|++++.. +.+..+..-+........ . ..+--+|+||.|-... 
T Consensus       218 lVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~~-  296 (374)
T PRK14722        218 MVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEASN-  296 (374)
T ss_pred             EEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCCC-
Confidence            88999999654332211   112   234456889988753 333333222222211000 0 0134678899996332 


Q ss_pred             ccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300         143 VISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                         .-.+..+....++++..++.  |.+|.+
T Consensus       297 ---~G~~l~~~~~~~lPi~yvt~--Gq~VPe  322 (374)
T PRK14722        297 ---LGGVLDTVIRYKLPVHYVST--GQKVPE  322 (374)
T ss_pred             ---ccHHHHHHHHHCcCeEEEec--CCCCCc
Confidence               23455666777877766654  555443

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.97  E-value=0.00017  Score=61.27  Aligned_cols=143  Identities=17%  Similarity=0.189  Sum_probs=75.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCC------Cccccc-----------------eeeeeEEEEEE------e-CCeEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFT------SAFVST-----------------VGIDFKVKTVF------R-HDKRV   70 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~------~~~~~~-----------------~~~~~~~~~~~------~-~~~~~   70 (221)
                      .-.|+|+|++|+||||++.+|...-..      .....+                 .+..+....-.      + ....+
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~~  429 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRDY  429 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhccC
Confidence            357899999999999999887642100      000000                 01111100000      0 01236


Q ss_pred             EEEEEeCCCcccccccchh---hc--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC
Q psy2300          71 KLQIWDTAGQERYRTITTA---YY--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS  145 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~---~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~  145 (221)
                      .+.|+||+|..........   .+  ......++|++..-  +...+...+..+..    ..+.-+|+||.|...    .
T Consensus       430 DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~----~~~~gvILTKlDEt~----~  499 (559)
T PRK12727        430 KLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAH----AKPQGVVLTKLDETG----R  499 (559)
T ss_pred             CEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHh----hCCeEEEEecCcCcc----c
Confidence            7889999995432211000   01  11234667777653  23334444333332    356789999999733    2


Q ss_pred             HHHHHHHHHHhCCeEEEEecCCCCCH-HHHH
Q psy2300         146 FERGKHLAESLGVEFFETSAKDNVNV-KGVF  175 (221)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~  175 (221)
                      .-.........++++..++.  |..+ +++.
T Consensus       500 lG~aLsv~~~~~LPI~yvt~--GQ~VPeDL~  528 (559)
T PRK12727        500 FGSALSVVVDHQMPITWVTD--GQRVPDDLH  528 (559)
T ss_pred             hhHHHHHHHHhCCCEEEEeC--CCCchhhhh
Confidence            34566666777887776654  5565 3433

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.97  E-value=1.7e-05  Score=63.00  Aligned_cols=59  Identities=17%  Similarity=0.133  Sum_probs=37.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCc-ccc-----ceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSA-FVS-----TVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~-----~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      -.++++|++|+|||||+|.|.+...... ..+     ...++.....+.....   ..++||||...+
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            4689999999999999999998653221 111     1123333444444322   248999998655

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK00098 GTPase RsgA; Reviewed

Probab=97.96  E-value=2e-05  Score=63.05  Aligned_cols=58  Identities=22%  Similarity=0.126  Sum_probs=35.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccc-----eeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSA-FVST-----VGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~-----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      -.++|+|.+|+|||||+|.|.+...... ..+.     ..++.....+..++.   ..++||||...
T Consensus       165 k~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~  228 (298)
T PRK00098        165 KVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSS  228 (298)
T ss_pred             ceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCc
Confidence            3589999999999999999987653211 1110     012333333333333   35899999654

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.88  E-value=0.00025  Score=51.94  Aligned_cols=83  Identities=12%  Similarity=0.029  Sum_probs=46.2

Q ss_pred             EEEEEEeCCCccccc----ccchhh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYR----TITTAY--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~----~~~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      ..+.++|++|.....    .....+  ....+.+++|+|+.....   ...+...+....  + ..-+|.||.|..... 
T Consensus        83 ~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~--~-~~~viltk~D~~~~~-  155 (173)
T cd03115          83 FDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEAL--G-ITGVILTKLDGDARG-  155 (173)
T ss_pred             CCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhC--C-CCEEEEECCcCCCCc-
Confidence            457889999964221    111111  134899999999865432   223333333322  2 467788999974432 


Q ss_pred             cCHHHHHHHHHHhCCeEEE
Q psy2300         144 ISFERGKHLAESLGVEFFE  162 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~  162 (221)
                         ......+...++|+..
T Consensus       156 ---g~~~~~~~~~~~p~~~  171 (173)
T cd03115         156 ---GAALSIRAVTGKPIKF  171 (173)
T ss_pred             ---chhhhhHHHHCcCeEe
Confidence               2233356666776543

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.85  E-value=0.00015  Score=60.75  Aligned_cols=105  Identities=13%  Similarity=0.108  Sum_probs=58.3

Q ss_pred             EEEEEEeCCCccccc----ccchhhcc---CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          70 VKLQIWDTAGQERYR----TITTAYYR---GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~----~~~~~~~~---~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      +.+.|+||+|.....    .....++.   ...-+++|++++-.  ...+......+..    -.+--+|+||.|-... 
T Consensus       300 ~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~----~~~~~vI~TKlDet~~-  372 (424)
T PRK05703        300 CDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSR----LPLDGLIFTKLDETSS-  372 (424)
T ss_pred             CCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCC----CCCCEEEEeccccccc-
Confidence            568899999964332    11222333   23466788887532  1223333233221    1234688999996332 


Q ss_pred             ccCHHHHHHHHHHhCCeEEEEecCCCCCH-HHHHHHHHHHHHHhh
Q psy2300         143 VISFERGKHLAESLGVEFFETSAKDNVNV-KGVFERLVDIICDKM  186 (221)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~~~i~~~~~~~~  186 (221)
                         .-.+..+....++++..++.  |.++ +++...=.+.+.+..
T Consensus       373 ---~G~i~~~~~~~~lPv~yit~--Gq~VpdDl~~a~~~~l~~~l  412 (424)
T PRK05703        373 ---LGSILSLLIESGLPISYLTN--GQRVPDDIKVANPEELVRLL  412 (424)
T ss_pred             ---ccHHHHHHHHHCCCEEEEeC--CCCChhhhhhCCHHHHHHHH
Confidence               23566777778888776654  6665 555554444444443

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.84  E-value=9.1e-05  Score=43.20  Aligned_cols=44  Identities=27%  Similarity=0.252  Sum_probs=28.8

Q ss_pred             CCcEEEEEEECCC--hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          93 GAMGFILMYDVTN--EESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        93 ~~d~vi~v~d~~~--~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      -.++++|++|++.  +.+.++-..++..++... .+.|+++|+||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            4689999999986  345666666777776654 5899999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>KOG2484|consensus

Probab=97.83  E-value=1.6e-05  Score=64.13  Aligned_cols=58  Identities=21%  Similarity=0.295  Sum_probs=47.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      .+.++++|+|.||+||||+||.|..... -....++|+|.....+..+.   .+.|.|.||.
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~-C~vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKA-CNVGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhcc-ccCCCCccchhhhhheeccC---CceeccCCce
Confidence            5689999999999999999999998885 44567778887777776654   4789999994

>TIGR00959 ffh signal recognition particle protein

Probab=97.82  E-value=0.00015  Score=60.65  Aligned_cols=92  Identities=13%  Similarity=0.047  Sum_probs=52.0

Q ss_pred             EEEEEEeCCCccccccc-ch---h--hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTI-TT---A--YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~-~~---~--~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|....... ..   .  ..-..+.+++|+|+....   +...+...+...   -...-+|+||.|-.... 
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~---v~i~giIlTKlD~~~~~-  255 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNER---LGLTGVVLTKLDGDARG-  255 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhh---CCCCEEEEeCccCcccc-
Confidence            56889999995332211 11   1  123578899999987542   233333333322   13457779999963322 


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                         -.+.......++|+.++..  |+.+++
T Consensus       256 ---G~~lsi~~~~~~PI~fi~~--Ge~i~d  280 (428)
T TIGR00959       256 ---GAALSVRSVTGKPIKFIGV--GEKIDD  280 (428)
T ss_pred             ---cHHHHHHHHHCcCEEEEeC--CCChhh
Confidence               2255566667888776655  444443

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd03114 ArgK-like The function of this protein family is unkown

Probab=97.77  E-value=0.00022  Score=50.97  Aligned_cols=58  Identities=17%  Similarity=0.146  Sum_probs=36.2

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      .+.+.|+||+|....   ...++..+|.+++|....-.+.+.-++    . ..+   ..--++++||.|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k----~-~~~---~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIK----A-GIM---EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhh----h-hHh---hhcCEEEEeCCC
Confidence            367889999885422   234788999999998876333222221    1 111   344578899987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.77  E-value=0.00037  Score=52.23  Aligned_cols=93  Identities=15%  Similarity=0.043  Sum_probs=52.8

Q ss_pred             EEEEEEeCCCccccccc----chhh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTI----TTAY--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~----~~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.++||+|.......    ...+  ....+-+++|++++....  .+...... ...   -.+--+|++|.|....  
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~--~~~~~~~~-~~~---~~~~~lIlTKlDet~~--  155 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQE--DLEQALAF-YEA---FGIDGLILTKLDETAR--  155 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGH--HHHHHHHH-HHH---SSTCEEEEESTTSSST--
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChH--HHHHHHHH-hhc---ccCceEEEEeecCCCC--
Confidence            45889999995533211    1111  125778999999886532  22222222 222   2344677999996332  


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                        .-.+..++...+.|+-.++.  |.+++++
T Consensus       156 --~G~~l~~~~~~~~Pi~~it~--Gq~V~Dl  182 (196)
T PF00448_consen  156 --LGALLSLAYESGLPISYITT--GQRVDDL  182 (196)
T ss_dssp             --THHHHHHHHHHTSEEEEEES--SSSTTGE
T ss_pred             --cccceeHHHHhCCCeEEEEC--CCChhcC
Confidence              23466667778888877664  5555443

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.76  E-value=0.00079  Score=56.10  Aligned_cols=154  Identities=12%  Similarity=0.139  Sum_probs=81.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCC---Cccc---c-----------------ceeeeeEEEEE-------EeCCeEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFT---SAFV---S-----------------TVGIDFKVKTV-------FRHDKRV   70 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~---~~~~---~-----------------~~~~~~~~~~~-------~~~~~~~   70 (221)
                      .-.|+|+|++|+||||++.+|.+....   ....   .                 ..+.......-       ...-...
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~~  270 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRGK  270 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcCC
Confidence            457999999999999999988653100   0000   0                 00111100000       0011223


Q ss_pred             EEEEEeCCCcccccc----cchhhc--cCCcEEEEEEECCC-hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          71 KLQIWDTAGQERYRT----ITTAYY--RGAMGFILMYDVTN-EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~----~~~~~~--~~~d~vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      .+.++||+|......    ....+.  ....-.++|+|++- ...+   .+++..+.    .-.+--+|+||.|-...  
T Consensus       271 d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~---~~~~~~f~----~~~~~~~I~TKlDEt~~--  341 (420)
T PRK14721        271 HMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTL---DEVISAYQ----GHGIHGCIITKVDEAAS--  341 (420)
T ss_pred             CEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHH---HHHHHHhc----CCCCCEEEEEeeeCCCC--
Confidence            578999999543211    111121  22446788899873 3333   33322222    13445778999996332  


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCH-HHHHHHHHHHHHHhhc
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNV-KGVFERLVDIICDKMS  187 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~~~i~~~~~~~~~  187 (221)
                        .-.+..+....++++..++  +|.++ +++...=.+.+.+...
T Consensus       342 --~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~~a~~~~lv~~ll  382 (420)
T PRK14721        342 --LGIALDAVIRRKLVLHYVT--NGQKVPEDLHEANSRYLLHRIF  382 (420)
T ss_pred             --ccHHHHHHHHhCCCEEEEE--CCCCchhhhhhCCHHHHHHHHh
Confidence              2345566677788776665  46777 5655554555555443

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.76  E-value=0.00032  Score=58.77  Aligned_cols=86  Identities=13%  Similarity=0.017  Sum_probs=48.3

Q ss_pred             EEEEEEeCCCccccccc-----ch-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTI-----TT-AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~-----~~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      ..+.++||+|.......     .. ..+..+|.+++|+|++...   +.......+...   -...-+|+||.|....- 
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~---l~i~gvIlTKlD~~a~~-  248 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEA---VGIGGIIITKLDGTAKG-  248 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhc---CCCCEEEEecccCCCcc-
Confidence            36889999996543211     11 1234688999999987642   122222222221   12356788999963321 


Q ss_pred             cCHHHHHHHHHHhCCeEEEEec
Q psy2300         144 ISFERGKHLAESLGVEFFETSA  165 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa  165 (221)
                         -.+.......+.|+.+++.
T Consensus       249 ---G~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        249 ---GGALSAVAETGAPIKFIGT  267 (437)
T ss_pred             ---cHHHHHHHHHCcCEEEEec
Confidence               2344555666777766654

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.75  E-value=0.00021  Score=63.39  Aligned_cols=154  Identities=12%  Similarity=0.115  Sum_probs=80.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccc--------------------eeeeeEEEEE-------EeCCeEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSA---FVST--------------------VGIDFKVKTV-------FRHDKRVK   71 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~---~~~~--------------------~~~~~~~~~~-------~~~~~~~~   71 (221)
                      -.|+|+|++|+||||++.+|........   ...-                    .++......-       .-....+.
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            3689999999999999999875421000   0000                    0110100000       00012246


Q ss_pred             EEEEeCCCccccccc----chhh--ccCCcEEEEEEECCC-hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          72 LQIWDTAGQERYRTI----TTAY--YRGAMGFILMYDVTN-EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        72 ~~i~D~~g~~~~~~~----~~~~--~~~~d~vi~v~d~~~-~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      +.|+||+|.......    ....  ....+-+++|+|++- .+.+.++   ...+.... .-.+--+|+||.|-...   
T Consensus       266 ~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i---~~~f~~~~-~~~i~glIlTKLDEt~~---  338 (767)
T PRK14723        266 LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEV---VHAYRHGA-GEDVDGCIITKLDEATH---  338 (767)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHH---HHHHhhcc-cCCCCEEEEeccCCCCC---
Confidence            889999994332211    1111  223566889999874 2333333   22222211 01245788999996432   


Q ss_pred             CHHHHHHHHHHhCCeEEEEecCCCCCH-HHHHHHHHHHHHHh
Q psy2300         145 SFERGKHLAESLGVEFFETSAKDNVNV-KGVFERLVDIICDK  185 (221)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~~~i~~~~~~~  185 (221)
                       .-.+..+....++|+..++  +|.+| +++...=.+.+.+.
T Consensus       339 -~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~  377 (767)
T PRK14723        339 -LGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDR  377 (767)
T ss_pred             -ccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHH
Confidence             2345556667788877665  47787 66655444444444

>KOG2485|consensus

Probab=97.74  E-value=3.1e-05  Score=60.77  Aligned_cols=61  Identities=18%  Similarity=0.338  Sum_probs=41.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC----CccccceeeeeEEEE-EEeCCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT----SAFVSTVGIDFKVKT-VFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~----~~~~~~~~~~~~~~~-~~~~~~~~~~~i~D~~g~   80 (221)
                      ...+.+.|+|.||+|||||||.+.....-    ......+|.+..+.. +.+. ..-.+.+.||||.
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~-~rp~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRIS-HRPPVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEec-cCCceEEecCCCc
Confidence            46799999999999999999987654321    234445566666555 2232 2234789999994

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.73  E-value=0.00017  Score=59.20  Aligned_cols=141  Identities=19%  Similarity=0.168  Sum_probs=74.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC----CCc-----------------cccceeeeeEEEEE---------EeC-CeE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF----TSA-----------------FVSTVGIDFKVKTV---------FRH-DKR   69 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~----~~~-----------------~~~~~~~~~~~~~~---------~~~-~~~   69 (221)
                      ...|+|+|++|+||||++..|...-.    ...                 +....+..+....-         ... ..+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            35799999999999999998864210    000                 00001111110000         000 012


Q ss_pred             EEEEEEeCCCccccccc----chhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTI----TTAYY--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~----~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|.......    ...++  ...+.+++|+|++-..  ..+...+..+..    -..--+|+||.|-...  
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~~i~~~F~~----~~idglI~TKLDET~k--  392 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD----IHIDGIVFTKFDETAS--  392 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHHHHHHHhcC----CCCCEEEEEcccCCCC--
Confidence            57889999996432211    11222  2356788999875321  223333333322    2446788999996442  


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                        .-.+...+...++|+..++.  |.++.+
T Consensus       393 --~G~iLni~~~~~lPIsyit~--GQ~VPe  418 (436)
T PRK11889        393 --SGELLKIPAVSSAPIVLMTD--GQDVKK  418 (436)
T ss_pred             --ccHHHHHHHHHCcCEEEEeC--CCCCCc
Confidence              22445566667887766543  555433

>PRK10867 signal recognition particle protein; Provisional

Probab=97.73  E-value=0.00022  Score=59.64  Aligned_cols=86  Identities=13%  Similarity=0.047  Sum_probs=47.8

Q ss_pred             EEEEEEeCCCcccccc-cc---hhh--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRT-IT---TAY--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-~~---~~~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|...... +.   ..+  .-..+.+++|+|+....   +.......+...   -...-+|+||.|-.....
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq---~av~~a~~F~~~---~~i~giIlTKlD~~~rgG  257 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQ---DAVNTAKAFNEA---LGLTGVILTKLDGDARGG  257 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHH---HHHHHHHHHHhh---CCCCEEEEeCccCccccc
Confidence            5688999999543211 11   111  12567789999986532   222222333321   123467789999633222


Q ss_pred             cCHHHHHHHHHHhCCeEEEEec
Q psy2300         144 ISFERGKHLAESLGVEFFETSA  165 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa  165 (221)
                          .+.......++|+.++..
T Consensus       258 ----~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        258 ----AALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             ----HHHHHHHHHCcCEEEEeC
Confidence                245556667788776655

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.72  E-value=0.00016  Score=61.10  Aligned_cols=154  Identities=14%  Similarity=0.176  Sum_probs=79.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC--c-cccce--------------------eeeeEEEEEE-------eCCeEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS--A-FVSTV--------------------GIDFKVKTVF-------RHDKRVK   71 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~--~-~~~~~--------------------~~~~~~~~~~-------~~~~~~~   71 (221)
                      -.++|+|++|+||||++.+|.......  . .....                    +.......-.       ..-....
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L~d~d  336 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSELRNKH  336 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhccCCC
Confidence            468999999999999999987532100  0 00000                    0000000000       0011235


Q ss_pred             EEEEeCCCccccccc---chhhccC---CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC
Q psy2300          72 LQIWDTAGQERYRTI---TTAYYRG---AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS  145 (221)
Q Consensus        72 ~~i~D~~g~~~~~~~---~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~  145 (221)
                      +.++||+|.......   ....+..   ..-.++|+|++-..  ..+.+...   .+. ....--+|+||.|-..    .
T Consensus       337 ~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~---~f~-~~~~~g~IlTKlDet~----~  406 (484)
T PRK06995        337 IVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQ---AYR-GPGLAGCILTKLDEAA----S  406 (484)
T ss_pred             eEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHH---Hhc-cCCCCEEEEeCCCCcc----c
Confidence            779999994322210   1111111   22377888886432  22222222   222 1334567789999633    2


Q ss_pred             HHHHHHHHHHhCCeEEEEecCCCCCH-HHHHHHHHHHHHHhhc
Q psy2300         146 FERGKHLAESLGVEFFETSAKDNVNV-KGVFERLVDIICDKMS  187 (221)
Q Consensus       146 ~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~~~i~~~~~~~~~  187 (221)
                      .-.+.......++++..++  +|.+| +++...=.+.+.+...
T Consensus       407 ~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~~a~~~~lv~~ll  447 (484)
T PRK06995        407 LGGALDVVIRYKLPLHYVS--NGQRVPEDLHLANKKFLLHRAF  447 (484)
T ss_pred             chHHHHHHHHHCCCeEEEe--cCCCChhhhccCCHHHHHHHHh
Confidence            3345566677788876665  47788 6666554555555443

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.72  E-value=0.00041  Score=55.91  Aligned_cols=85  Identities=12%  Similarity=0.153  Sum_probs=45.3

Q ss_pred             EEEEEEeCCCcccccccchhhcc--------CCcEEEEEEECCChhhH-HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYR--------GAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~--------~~d~vi~v~d~~~~~s~-~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ....++++.|-.....+...++.        ..+.++.|+|+.+-... ........++      ...=+|++||+|+..
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi------~~AD~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQV------GYADRILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHH------HhCCEEEEeccccCC
Confidence            34567888886544333333211        24779999998653211 1111111222      234588999999865


Q ss_pred             CcccCHHHHHHHHHHhC--CeEEEEe
Q psy2300         141 ERVISFERGKHLAESLG--VEFFETS  164 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~--~~~~~~S  164 (221)
                      ..    +......+.++  .+++.++
T Consensus       165 ~~----~~~~~~l~~lnp~a~i~~~~  186 (318)
T PRK11537        165 EA----EKLRERLARINARAPVYTVV  186 (318)
T ss_pred             HH----HHHHHHHHHhCCCCEEEEec
Confidence            32    34555555554  4566543

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.70  E-value=0.00037  Score=57.06  Aligned_cols=139  Identities=18%  Similarity=0.194  Sum_probs=73.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC--C-CccccceeeeeE--------------------EEEE-------EeCCeEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF--T-SAFVSTVGIDFK--------------------VKTV-------FRHDKRV   70 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~--~-~~~~~~~~~~~~--------------------~~~~-------~~~~~~~   70 (221)
                      .-.|++||+.|+||||-+-+|...-.  . .....-++++.+                    ...-       ...-..+
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            45689999999999998887765432  0 111111111111                    1100       0011234


Q ss_pred             EEEEEeCCCcccccccc----hhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          71 KLQIWDTAGQERYRTIT----TAYYR--GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~----~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      .+.++||.|...+....    ..++.  ...-+.+|++++-.  ..++...+..+...    ..-=+|+||.|-..    
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~----~i~~~I~TKlDET~----  352 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLF----PIDGLIFTKLDETT----  352 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccC----CcceeEEEcccccC----
Confidence            68899999976554322    22322  23456677777643  23444444443322    22356789999533    


Q ss_pred             CHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300         145 SFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      +.-.....+...+.|+..++  +|.+|
T Consensus       353 s~G~~~s~~~e~~~PV~YvT--~GQ~V  377 (407)
T COG1419         353 SLGNLFSLMYETRLPVSYVT--NGQRV  377 (407)
T ss_pred             chhHHHHHHHHhCCCeEEEe--CCCCC
Confidence            23345555666677665543  45444

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.68  E-value=0.0014  Score=52.77  Aligned_cols=144  Identities=20%  Similarity=0.204  Sum_probs=77.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCC------ccccceeee---------eEEEEE-------Ee-------------CCe
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTS------AFVSTVGID---------FKVKTV-------FR-------------HDK   68 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~------~~~~~~~~~---------~~~~~~-------~~-------------~~~   68 (221)
                      .+|-|.-|||||||++.++.+.--.      +.....+++         .....+       ++             ...
T Consensus         4 tvitGFLGsGKTTlL~~lL~~~~g~kiAVIVNEfGEvgID~~~~l~~~~e~~~El~nGCICCT~r~dl~~~~~~L~~~~~   83 (323)
T COG0523           4 TVITGFLGSGKTTLLNHLLANRDGKKIAVIVNEFGEVGIDGGALLSDTGEEVVELTNGCICCTVRDDLLPALERLLRRRD   83 (323)
T ss_pred             EEEeecCCCCHHHHHHHHHhccCCCcEEEEEecCccccccCCCccccCCccEEEeCCceEEEeccchhHHHHHHHHhccC
Confidence            5788999999999999998764200      000001111         111111       10             011


Q ss_pred             EEEEEEEeCCCcccccccchhhc--------cCCcEEEEEEECCChhhHHH-HHH-HHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYY--------RGAMGFILMYDVTNEESFTS-IQD-WITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~--------~~~d~vi~v~d~~~~~s~~~-~~~-~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      .....++++.|-..-......+.        -..|.++-|+|+.+-..... ... ...++      ..-=+|++||.|+
T Consensus        84 ~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qi------a~AD~ivlNK~Dl  157 (323)
T COG0523          84 RPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQL------AFADVIVLNKTDL  157 (323)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHH------HhCcEEEEecccC
Confidence            13456778887443322222222        23577999999875322111 222 22222      3445899999999


Q ss_pred             CCCcccCHHHHHHHHHHhC--CeEEEEecCCCCCHHHHHH
Q psy2300         139 EDERVISFERGKHLAESLG--VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~  176 (221)
                      .++..  .+..+...+.++  .+++.++. .+.+..+++.
T Consensus       158 v~~~~--l~~l~~~l~~lnp~A~i~~~~~-~~~~~~~ll~  194 (323)
T COG0523         158 VDAEE--LEALEARLRKLNPRARIIETSY-GDVDLAELLD  194 (323)
T ss_pred             CCHHH--HHHHHHHHHHhCCCCeEEEccc-cCCCHHHhhc
Confidence            77653  455556666665  57787777 4444444443

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.63  E-value=0.00033  Score=49.48  Aligned_cols=107  Identities=16%  Similarity=0.091  Sum_probs=61.1

Q ss_pred             EEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECC
Q psy2300          25 LIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        25 ~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                      ..-|..|+|||++.-.+...-. .......-.+.+..   ...-.+.+.++|+|+..  .......+..+|.++++++.+
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~-~~~~~~~~vd~D~~---~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~   77 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALA-KLGKRVLLLDADLG---LANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE   77 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHH-HCCCcEEEEECCCC---CCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC
Confidence            4557889999998665543210 00001111111100   00011678899998743  333456788999999999875


Q ss_pred             ChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300         105 NEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus       105 ~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                       ..++..+...+..+.... ...++.+|+|+.+..
T Consensus        78 -~~s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          78 -PTSITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             -hhHHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence             344555445555554322 356788999999753

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.59  E-value=0.0026  Score=52.64  Aligned_cols=154  Identities=17%  Similarity=0.144  Sum_probs=81.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC--------CCcc-----------------ccceeeeeEEEEEE-------eCCe
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF--------TSAF-----------------VSTVGIDFKVKTVF-------RHDK   68 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~--------~~~~-----------------~~~~~~~~~~~~~~-------~~~~   68 (221)
                      .-.|+++|++|+||||.+.++...-.        ....                 ....+..+......       ....
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~  253 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSK  253 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhC
Confidence            45789999999999999988764210        0000                 00011111111100       0112


Q ss_pred             EEEEEEEeCCCccccccc----chhhccC--Cc-EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          69 RVKLQIWDTAGQERYRTI----TTAYYRG--AM-GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~----~~~~~~~--~d-~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      .+.+.++||+|.......    ...++..  .+ -.++|+|++-..  ..+...+   ..+. .-.+--+|+||.|-...
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~--~~~~~~~---~~~~-~~~~~~~I~TKlDet~~  327 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT--SDVKEIF---HQFS-PFSYKTVIFTKLDETTC  327 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH--HHHHHHH---HHhc-CCCCCEEEEEeccCCCc
Confidence            356889999996533211    1112222  23 588999987642  3333333   3332 12356788999996332


Q ss_pred             cccCHHHHHHHHHHhCCeEEEEecCCCCCH-HHHHHHHHHHHHHhh
Q psy2300         142 RVISFERGKHLAESLGVEFFETSAKDNVNV-KGVFERLVDIICDKM  186 (221)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi-~~l~~~i~~~~~~~~  186 (221)
                          .-.+..+....++|+..++  +|.++ +++...=.+.+.+..
T Consensus       328 ----~G~~l~~~~~~~~Pi~yit--~Gq~vPeDl~~~~~~~~~~~l  367 (388)
T PRK12723        328 ----VGNLISLIYEMRKEVSYVT--DGQIVPHNISIAEPLTFIKKI  367 (388)
T ss_pred             ----chHHHHHHHHHCCCEEEEe--CCCCChhhhhhCCHHHHHHHh
Confidence                2344555666777776554  47777 555554444444443

>KOG0469|consensus

Probab=97.58  E-value=0.00039  Score=58.13  Aligned_cols=115  Identities=18%  Similarity=0.218  Sum_probs=76.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC------------CC--CccccceeeeeEEEEE----------------EeCCeE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS------------FT--SAFVSTVGIDFKVKTV----------------FRHDKR   69 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~------------~~--~~~~~~~~~~~~~~~~----------------~~~~~~   69 (221)
                      +.-++-|+.+...|||||-..|...-            |.  .......+++..+..+                ..++..
T Consensus        18 NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~~   97 (842)
T KOG0469|consen   18 NIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGNG   97 (842)
T ss_pred             ccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCcc
Confidence            45567889999999999998876421            10  0111222333333222                124456


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      +.+.++|.||+-.|.+.....++-.|+.++|+|.-+.--.+.-..+.+.+.+    ...-++++||+|.
T Consensus        98 FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   98 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE----RIKPVLVMNKMDR  162 (842)
T ss_pred             eeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh----hccceEEeehhhH
Confidence            7899999999999998888899999999999998764322222234444443    4555678999995

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.52  E-value=0.00062  Score=45.38  Aligned_cols=82  Identities=15%  Similarity=0.120  Sum_probs=49.2

Q ss_pred             EEEEc-CCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          24 LLIIG-NSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        24 i~vvG-~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      |+|.| ..|+||||+...+...-..      .+.  ....+..+.. +.+.++|+|+....  .....+..+|.++++++
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~------~~~--~vl~~d~d~~-~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~   70 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALAR------RGK--RVLLIDLDPQ-YDYIIIDTPPSLGL--LTRNALAAADLVLIPVQ   70 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHh------CCC--cEEEEeCCCC-CCEEEEeCcCCCCH--HHHHHHHHCCEEEEecc
Confidence            56677 5689999987766543210      111  1111212222 67889999986432  23356788999999998


Q ss_pred             CCChhhHHHHHHHHH
Q psy2300         103 VTNEESFTSIQDWIT  117 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~  117 (221)
                      .+ ..++..+..++.
T Consensus        71 ~~-~~s~~~~~~~~~   84 (104)
T cd02042          71 PS-PLDLDGLEKLLE   84 (104)
T ss_pred             CC-HHHHHHHHHHHH
Confidence            64 445555555554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.49  E-value=0.00077  Score=47.20  Aligned_cols=25  Identities=28%  Similarity=0.361  Sum_probs=22.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.+++.|++|+|||+|++.+....
T Consensus        19 ~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009          19 PKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3468999999999999999998765

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.49  E-value=0.00041  Score=57.52  Aligned_cols=138  Identities=17%  Similarity=0.200  Sum_probs=71.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC-CC-Cc--------------------cccceeeeeEEEE-E-----EeCCeEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS-FT-SA--------------------FVSTVGIDFKVKT-V-----FRHDKRVKLQ   73 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~-~~-~~--------------------~~~~~~~~~~~~~-~-----~~~~~~~~~~   73 (221)
                      ..++|+|++|+||||++.+|.... .. ..                    +....+....... .     ......+.+.
T Consensus       224 ~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~V  303 (432)
T PRK12724        224 KVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSELI  303 (432)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCEE
Confidence            468899999999999999887421 00 00                    0001111111100 0     0011235678


Q ss_pred             EEeCCCcccccc----cchhhcc-----CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          74 IWDTAGQERYRT----ITTAYYR-----GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        74 i~D~~g~~~~~~----~~~~~~~-----~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      ++||+|......    .+..++.     ...-.++|+|++-..  ..+........    .-.+--+|+||.|-...   
T Consensus       304 LIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~----~~~~~glIlTKLDEt~~---  374 (432)
T PRK12724        304 LIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYE----SLNYRRILLTKLDEADF---  374 (432)
T ss_pred             EEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhc----CCCCCEEEEEcccCCCC---
Confidence            999999642211    1111221     234678899987543  22222222221    12446788999996332   


Q ss_pred             CHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300         145 SFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                       .-.+.......+.|+..++.  |.++
T Consensus       375 -~G~il~i~~~~~lPI~ylt~--GQ~V  398 (432)
T PRK12724        375 -LGSFLELADTYSKSFTYLSV--GQEV  398 (432)
T ss_pred             -ccHHHHHHHHHCCCEEEEec--CCCC
Confidence             22355566677887766654  4444

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=97.47  E-value=0.011  Score=42.76  Aligned_cols=147  Identities=10%  Similarity=0.141  Sum_probs=96.3

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      +....|-.+...|++||..+.++..|..++....  ..      ....+...    ....+     |  .+....    -
T Consensus         6 p~~klp~ln~atiLLVg~e~~~~~~LA~a~l~~~--~~------~~l~Vh~a----~sLPL-----p--~e~~~l----R   62 (176)
T PF11111_consen    6 PFDKLPELNTATILLVGTEEALLQQLAEAMLEED--KE------FKLKVHLA----KSLPL-----P--SENNNL----R   62 (176)
T ss_pred             ccccCCCcceeEEEEecccHHHHHHHHHHHHhhc--cc------eeEEEEEe----ccCCC-----c--ccccCC----C
Confidence            3445566778999999999999999999998632  11      11111111    01111     1  111111    2


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      ...|.|+|++|.....++..++.-+..+....--++ +.++++-....+.-.+...+..+++..++++++.+.-.+.++.
T Consensus        63 prIDlIVFvinl~sk~SL~~ve~SL~~vd~~fflGK-VCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~  141 (176)
T PF11111_consen   63 PRIDLIVFVINLHSKYSLQSVEASLSHVDPSFFLGK-VCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGR  141 (176)
T ss_pred             ceeEEEEEEEecCCcccHHHHHHHHhhCChhhhccc-eEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHH
Confidence            457999999999999999888876666522221244 4444555554455567788999999999999999999888777


Q ss_pred             HHHHHHHHHHH
Q psy2300         172 KGVFERLVDII  182 (221)
Q Consensus       172 ~~l~~~i~~~~  182 (221)
                      ..+-+.|.+.+
T Consensus       142 ~~lAqRLL~~l  152 (176)
T PF11111_consen  142 TSLAQRLLRML  152 (176)
T ss_pred             HHHHHHHHHHH
Confidence            76666665544

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.45  E-value=0.00012  Score=50.22  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|.|++||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999865

...

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.44  E-value=0.0014  Score=42.59  Aligned_cols=68  Identities=18%  Similarity=0.160  Sum_probs=43.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc-chhhccCCcEEEEEEE
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI-TTAYYRGAMGFILMYD  102 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-~~~~~~~~d~vi~v~d  102 (221)
                      +++.|..|+||||+...+...-..      .+  +..  ..++    .+.++|+++....... .......+|.++++++
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~------~g--~~v--~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~   67 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAK------RG--KRV--LLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTT   67 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHH------CC--CeE--EEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecC
Confidence            678899999999998887654311      11  111  1111    6779999875432221 1345678899999998


Q ss_pred             CCC
Q psy2300         103 VTN  105 (221)
Q Consensus       103 ~~~  105 (221)
                      ...
T Consensus        68 ~~~   70 (99)
T cd01983          68 PEA   70 (99)
T ss_pred             Cch
Confidence            764

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.43  E-value=0.00055  Score=47.79  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|++.|+.|+|||||++.+....
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998764

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PRK08118 topology modulation protein; Reviewed

Probab=97.38  E-value=0.00015  Score=52.87  Aligned_cols=23  Identities=22%  Similarity=0.528  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +|+|+|++|||||||.+.|....
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999998653

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.38  E-value=0.00093  Score=44.84  Aligned_cols=99  Identities=15%  Similarity=0.106  Sum_probs=57.8

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh
Q psy2300          28 GNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE  107 (221)
Q Consensus        28 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~  107 (221)
                      +..|+||||+...|...-....     +.+........... ..+.++|+|+...  ......+..+|.++++++.+ ..
T Consensus         7 ~kgg~gkt~~~~~la~~~~~~~-----~~~~~l~d~d~~~~-~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~-~~   77 (106)
T cd03111           7 AKGGVGATTLAANLAVALAKEA-----GRRVLLVDLDLQFG-DDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQD-LP   77 (106)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcC-----CCcEEEEECCCCCC-CCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCC-hH
Confidence            4567999998766653321110     11111111111111 1688999997543  22344678899999999764 45


Q ss_pred             hHHHHHHHHHHHHhhCCC-CCcEEEEEeC
Q psy2300         108 SFTSIQDWITQIKTYSWD-NAQVILVGNK  135 (221)
Q Consensus       108 s~~~~~~~~~~l~~~~~~-~~p~ivv~nK  135 (221)
                      ++..+..++..+...... ...+.+|+|+
T Consensus        78 s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          78 SIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            667777777777665433 4567777775

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.35  E-value=0.00023  Score=42.59  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      ..+|.|+.|+|||||+.++..--+
T Consensus        25 ~tli~G~nGsGKSTllDAi~~~L~   48 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQTVLY   48 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHc
Confidence            489999999999999998865443

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.34  E-value=0.00099  Score=52.36  Aligned_cols=139  Identities=19%  Similarity=0.158  Sum_probs=74.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC----C-----------------ccccceeeeeEEEEE---------Ee-CCeEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT----S-----------------AFVSTVGIDFKVKTV---------FR-HDKRV   70 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~----~-----------------~~~~~~~~~~~~~~~---------~~-~~~~~   70 (221)
                      -+++++|++|+||||++..+...-..    .                 .+....+..+....-         .. ....+
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            58999999999999998877543100    0                 000001111111000         00 11236


Q ss_pred             EEEEEeCCCccccccc----chhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          71 KLQIWDTAGQERYRTI----TTAYY--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~----~~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      .+.++||+|.......    +..++  ...+-+++|+|++-..  .++..++..+..    -.+--+|+||.|-...   
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~~f~~----~~~~~~I~TKlDet~~---  226 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD----IHIDGIVFTKFDETAS---  226 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHHHhCC----CCCCEEEEEeecCCCC---
Confidence            7889999996532211    11122  2456789999976321  223333333322    3456788999996442   


Q ss_pred             CHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300         145 SFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                       .-.+..++...+.|+..++.  |.++.
T Consensus       227 -~G~~l~~~~~~~~Pi~~it~--Gq~vp  251 (270)
T PRK06731        227 -SGELLKIPAVSSAPIVLMTD--GQDVK  251 (270)
T ss_pred             -ccHHHHHHHHHCcCEEEEeC--CCCCC
Confidence             22445566677887766653  55554

>PRK10646 ADP-binding protein; Provisional

Probab=97.33  E-value=0.0013  Score=47.06  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -|++-|+-|+|||||++.+...-
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48999999999999999998764

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.33  E-value=0.00019  Score=50.75  Aligned_cols=22  Identities=23%  Similarity=0.430  Sum_probs=19.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+++|+||||||||++.+....
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            7899999999999999998443

...

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.32  E-value=0.0025  Score=46.92  Aligned_cols=86  Identities=21%  Similarity=0.237  Sum_probs=60.3

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHH
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFE  147 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  147 (221)
                      ..+.+.++|+|+...  ......+..+|.+++++..+. .+...+..++..+...   +.++.+|+||.|....   ...
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~~---~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPTP-SGLHDLERAVELVRHF---GIPVGVVINKYDLNDE---IAE  161 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCc-ccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCcc---hHH
Confidence            456889999997532  223445788999999998763 4566666776666654   5778999999997432   234


Q ss_pred             HHHHHHHHhCCeEEE
Q psy2300         148 RGKHLAESLGVEFFE  162 (221)
Q Consensus       148 ~~~~~~~~~~~~~~~  162 (221)
                      +..++.+..+++++.
T Consensus       162 ~~~~~~~~~~~~vl~  176 (179)
T cd03110         162 EIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHcCCCeEE
Confidence            566777777877653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>PRK07261 topology modulation protein; Provisional

Probab=97.32  E-value=0.0002  Score=52.50  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +|+|+|++|+|||||...+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998754

>KOG1534|consensus

Probab=97.32  E-value=0.00041  Score=51.66  Aligned_cols=22  Identities=18%  Similarity=0.495  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +-+.|+|+.|+||||+.+.+..
T Consensus         4 ya~lV~GpAgSGKSTyC~~~~~   25 (273)
T KOG1534|consen    4 YAQLVMGPAGSGKSTYCSSMYE   25 (273)
T ss_pred             eeEEEEccCCCCcchHHHHHHH
Confidence            5678999999999999998764

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.31  E-value=0.0011  Score=54.41  Aligned_cols=153  Identities=14%  Similarity=0.151  Sum_probs=79.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC----CC------cc-----------ccceeeeeEEEEEE---------eC-CeE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF----TS------AF-----------VSTVGIDFKVKTVF---------RH-DKR   69 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~----~~------~~-----------~~~~~~~~~~~~~~---------~~-~~~   69 (221)
                      .-.++|+|+.|+||||++.++.....    ..      .+           ....+..+....-.         .. ...
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~  285 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNC  285 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCC
Confidence            44689999999999999998764210    00      00           00011111100000         00 023


Q ss_pred             EEEEEEeCCCcccccccc----hhhc--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTIT----TAYY--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~----~~~~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|........    ..+.  ...+.+++|+++..  ...++...+..   +. .-.+--+|+||.|-...  
T Consensus       286 ~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~--~~~d~~~i~~~---f~-~l~i~glI~TKLDET~~--  357 (407)
T PRK12726        286 VDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGM--KSADVMTILPK---LA-EIPIDGFIITKMDETTR--  357 (407)
T ss_pred             CCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCcc--cHHHHHHHHHh---cC-cCCCCEEEEEcccCCCC--
Confidence            578899999975332211    1122  23467777877632  22233332222   22 12345778999996432  


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCHHH-HHHHHHHHHHHh
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNVKG-VFERLVDIICDK  185 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~-l~~~i~~~~~~~  185 (221)
                        .-.+...+...+.|+..++.  |.++.+ ++..=.+.+.+.
T Consensus       358 --~G~~Lsv~~~tglPIsylt~--GQ~VpdDi~~a~~~~Lv~~  396 (407)
T PRK12726        358 --IGDLYTVMQETNLPVLYMTD--GQNITENIFRPKSRWLAER  396 (407)
T ss_pred             --ccHHHHHHHHHCCCEEEEec--CCCCCcccCCCCHHHHHHH
Confidence              23455666777888776665  556553 444433344433

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=97.30  E-value=0.003  Score=46.55  Aligned_cols=23  Identities=26%  Similarity=0.287  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            58999999999999999988764

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.30  E-value=0.00021  Score=52.65  Aligned_cols=23  Identities=26%  Similarity=0.593  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+|+|+|+|||||||+..+|...
T Consensus         1 ~riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           1 MRILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999999877

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=97.24  E-value=0.00067  Score=46.67  Aligned_cols=24  Identities=29%  Similarity=0.375  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      --|++-|+-|+|||||++.+...-
T Consensus        16 ~vi~L~GdLGaGKTtf~r~l~~~l   39 (123)
T PF02367_consen   16 DVILLSGDLGAGKTTFVRGLARAL   39 (123)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHc
Confidence            458999999999999999988654

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.24  E-value=0.00023  Score=52.06  Aligned_cols=47  Identities=17%  Similarity=0.163  Sum_probs=30.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV   70 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   70 (221)
                      .-++|.|++|+|||||+++|....  .-..+...+|.....-.+++..+
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~--~l~~SVS~TTR~pR~gEv~G~dY   51 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD--KLRFSVSATTRKPRPGEVDGVDY   51 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc--CeEEEEEeccCCCCCCCcCCcee
Confidence            357899999999999999999876  22222223334444444455443

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.23  E-value=0.00034  Score=53.52  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+++|++|||||||++-+.+-.
T Consensus        32 vsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7999999999999999988765

>KOG2423|consensus

Probab=97.20  E-value=0.00013  Score=59.16  Aligned_cols=59  Identities=15%  Similarity=0.151  Sum_probs=0.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      +....|.|+|+|.||+||||+||.|-...+ -...|..|-+.-...+..-   -++.++|+||
T Consensus       303 ~dkkqISVGfiGYPNvGKSSiINTLR~KkV-CkvAPIpGETKVWQYItLm---krIfLIDcPG  361 (572)
T KOG2423|consen  303 SDKKQISVGFIGYPNVGKSSIINTLRKKKV-CKVAPIPGETKVWQYITLM---KRIFLIDCPG  361 (572)
T ss_pred             cCccceeeeeecCCCCchHHHHHHHhhccc-ccccCCCCcchHHHHHHHH---hceeEecCCC

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.19  E-value=0.00023  Score=51.61  Aligned_cols=22  Identities=32%  Similarity=0.549  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ||+|+|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999865

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.16  E-value=0.00035  Score=51.91  Aligned_cols=24  Identities=13%  Similarity=0.216  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-|+|+|++|||||||+++|....
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            448999999999999999998753

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.16  E-value=0.00043  Score=42.56  Aligned_cols=21  Identities=29%  Similarity=0.488  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |++.|.+|+||||+.+.+...
T Consensus         2 i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            688999999999999998865

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.15  E-value=0.00041  Score=48.65  Aligned_cols=23  Identities=26%  Similarity=0.333  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEEccCCCccccceeeecccc
Confidence            57999999999999999888765

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=97.14  E-value=0.0031  Score=52.81  Aligned_cols=52  Identities=21%  Similarity=0.255  Sum_probs=32.0

Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      .+....+++++++|+== .+.--+..++..++..+......+..+|+|-.|.+
T Consensus       150 EIlKaLyr~a~iLILDE-PTaVLTP~E~~~lf~~l~~l~~~G~tIi~ITHKL~  201 (501)
T COG3845         150 EILKALYRGARLLILDE-PTAVLTPQEADELFEILRRLAAEGKTIIFITHKLK  201 (501)
T ss_pred             HHHHHHhcCCCEEEEcC-CcccCCHHHHHHHHHHHHHHHHCCCEEEEEeccHH
Confidence            34455678888777611 11112345566666666666656888888888865

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=97.14  E-value=0.0017  Score=45.83  Aligned_cols=59  Identities=15%  Similarity=0.175  Sum_probs=34.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEe--CCeEEEEEEEeCCCcc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFR--HDKRVKLQIWDTAGQE   81 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~D~~g~~   81 (221)
                      .--|++-|+-|||||||.+.+...--.....+++  |+.......  ...-+++.+|-....+
T Consensus        25 g~Vv~L~GdLGAGKTtf~rgi~~~Lg~~~~V~SP--TFtlv~~Y~~~~~~lyH~DlYRl~d~e   85 (149)
T COG0802          25 GDVVLLSGDLGAGKTTLVRGIAKGLGVDGNVKSP--TFTLVEEYEEGRLPLYHFDLYRLSDPE   85 (149)
T ss_pred             CCEEEEEcCCcCChHHHHHHHHHHcCCCCcccCC--CeeeehhhcCCCCcEEEEeeeccCChH
Confidence            3468999999999999999988665323333333  233333321  1122555566555433

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.11  E-value=0.007  Score=52.02  Aligned_cols=38  Identities=24%  Similarity=0.291  Sum_probs=26.8

Q ss_pred             chhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300           7 TKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus         7 ~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..|.+.+....... --+++.||+||||||.++.|+...
T Consensus        32 ~~wl~~~~~~~~~~-~iLlLtGP~G~GKtttv~~La~el   69 (519)
T PF03215_consen   32 RSWLEEMFSGSSPK-RILLLTGPSGCGKTTTVKVLAKEL   69 (519)
T ss_pred             HHHHHHHhccCCCc-ceEEEECCCCCCHHHHHHHHHHHh
Confidence            45666654433222 256789999999999999988653

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.09  E-value=0.0033  Score=49.81  Aligned_cols=106  Identities=17%  Similarity=0.191  Sum_probs=59.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc----------------
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ----------------   80 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~----------------   80 (221)
                      +......++++|++|-|||+++++|....-+. .... .            ..+.+.....|..                
T Consensus        57 ~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~-~d~~-~------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lga  122 (302)
T PF05621_consen   57 KRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQ-SDED-A------------ERIPVVYVQMPPEPDERRFYSAILEALGA  122 (302)
T ss_pred             cccCCCceEEecCCCCcHHHHHHHHHHHCCCC-CCCC-C------------ccccEEEEecCCCCChHHHHHHHHHHhCc
Confidence            34456789999999999999999999876322 1111 1            1123333333320                


Q ss_pred             --------ccccccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCC
Q psy2300          81 --------ERYRTITTAYYRGAMGFILMYDVTN---EESFTSIQDWITQIKTYS-WDNAQVILVGNKC  136 (221)
Q Consensus        81 --------~~~~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~  136 (221)
                              ..........++...+=++++|=-+   ..+....+..++.++... .-..|+|.++++-
T Consensus       123 P~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~  190 (302)
T PF05621_consen  123 PYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTRE  190 (302)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHH
Confidence                    1111222345677788888888332   123333344444443332 2378999998754

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.06  E-value=0.00068  Score=47.77  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|+|||||++.|...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999875

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.05  E-value=0.014  Score=42.60  Aligned_cols=84  Identities=12%  Similarity=0.018  Sum_probs=51.6

Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK  150 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  150 (221)
                      .+.++|+|+....  .....+..+|.+|++++.+. .++..+..++..+...  ....+.+|+|+.+.....  ..+...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~--~~~~~~iv~N~~~~~~~~--~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEAL--GIKVVGVIVNRVRPDMVE--GGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHc--CCceEEEEEeCCcccccc--hhhHHH
Confidence            5889999875332  23445788999999998754 4455555666666553  234578899999864321  112233


Q ss_pred             HHHHHhCCeEE
Q psy2300         151 HLAESLGVEFF  161 (221)
Q Consensus       151 ~~~~~~~~~~~  161 (221)
                      .+.+..+.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            44444566554

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.04  E-value=0.00069  Score=51.22  Aligned_cols=26  Identities=31%  Similarity=0.411  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ...-|+|+|++|||||||++.|....
T Consensus        12 ~~~~ivi~GpsG~GK~tl~~~L~~~~   37 (206)
T PRK14738         12 KPLLVVISGPSGVGKDAVLARMRERK   37 (206)
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHhcC
Confidence            44568899999999999999997643

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.04  E-value=0.00063  Score=47.22  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=22.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      -.++|+|++|+|||+++..+.....
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccC
Confidence            4689999999999999999987764

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.03  E-value=0.00059  Score=47.25  Aligned_cols=22  Identities=27%  Similarity=0.351  Sum_probs=19.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |++.|++|+|||++++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            6899999999999999998764

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.00  E-value=0.00079  Score=51.22  Aligned_cols=22  Identities=27%  Similarity=0.389  Sum_probs=19.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+++|++|||||||++-+.+-.
T Consensus        34 vaI~GpSGSGKSTLLniig~ld   55 (226)
T COG1136          34 VAIVGPSGSGKSTLLNLLGGLD   55 (226)
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            7999999999999999887665

>TIGR00235 udk uridine kinase

Probab=96.95  E-value=0.00099  Score=50.36  Aligned_cols=26  Identities=23%  Similarity=0.156  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +....|+|+|++|||||||++.+.+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999999864

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>KOG1533|consensus

Probab=96.94  E-value=0.00088  Score=50.77  Aligned_cols=68  Identities=13%  Similarity=0.153  Sum_probs=38.3

Q ss_pred             EEEEEEeCCCccccc----ccch--hhccCCcEEEEEEEC------CChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          70 VKLQIWDTAGQERYR----TITT--AYYRGAMGFILMYDV------TNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~----~~~~--~~~~~~d~vi~v~d~------~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      -.+.++|+||+-+.-    .++.  ..++.-|.-+.++..      ++|..|  +..++..+.....-..|-|=|+.|+|
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~--iS~lL~sl~tMl~melphVNvlSK~D  174 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKF--ISSLLVSLATMLHMELPHVNVLSKAD  174 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHH--HHHHHHHHHHHHhhcccchhhhhHhH
Confidence            357799999965332    2221  123445554444443      356555  33344444333334788999999999


Q ss_pred             CC
Q psy2300         138 ME  139 (221)
Q Consensus       138 l~  139 (221)
                      +.
T Consensus       175 l~  176 (290)
T KOG1533|consen  175 LL  176 (290)
T ss_pred             HH
Confidence            73

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.94  E-value=0.00072  Score=52.46  Aligned_cols=21  Identities=29%  Similarity=0.301  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++++|+.|||||||++.+.+-
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g~   51 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAGL   51 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhcc
Confidence            689999999999999999874

>PRK04195 replication factor C large subunit; Provisional

Probab=96.93  E-value=0.014  Score=50.05  Aligned_cols=25  Identities=40%  Similarity=0.493  Sum_probs=21.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.++|.|++|+||||+++.+....
T Consensus        39 ~~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         39 KKALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            3568999999999999999998754

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.92  E-value=0.0012  Score=49.65  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|++|||||||++.+-+-.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~LE   52 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNGLE   52 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCc
Confidence            47999999999999999887655

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.92  E-value=0.00089  Score=47.34  Aligned_cols=23  Identities=17%  Similarity=0.443  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|+|+|+.|+|||||+..|.+.-
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999987653

>PRK06217 hypothetical protein; Validated

Probab=96.91  E-value=0.00088  Score=49.60  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+|+|+|.+|||||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999865

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.91  E-value=0.0008  Score=47.35  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|+++|++|+|||+|++.+....
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            38999999999999999887543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK03839 putative kinase; Provisional

Probab=96.91  E-value=0.00085  Score=49.48  Aligned_cols=22  Identities=32%  Similarity=0.397  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +|+|+|+|||||||+.++|...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999998765

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.91  E-value=0.0008  Score=49.54  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|||||||++.|....
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~   25 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARL   25 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47999999999999999987653

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.90  E-value=0.00091  Score=49.67  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|+|+|++|||||||++.|....
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58999999999999999997654

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.89  E-value=0.00091  Score=46.09  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|.|.+||||||+++.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998765

...

>PRK01889 GTPase RsgA; Reviewed

Probab=96.87  E-value=0.0014  Score=53.85  Aligned_cols=24  Identities=21%  Similarity=0.434  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -+++|+|.+|+|||||++.+.+..
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~  219 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEE  219 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhc
Confidence            378999999999999999999754

>KOG0780|consensus

Probab=96.87  E-value=0.0013  Score=53.33  Aligned_cols=48  Identities=13%  Similarity=0.213  Sum_probs=29.7

Q ss_pred             CeEEEEEEEeCCCccc-----ccccchh-hccCCcEEEEEEECCChhhHHHHHH
Q psy2300          67 DKRVKLQIWDTAGQER-----YRTITTA-YYRGAMGFILMYDVTNEESFTSIQD  114 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~-----~~~~~~~-~~~~~d~vi~v~d~~~~~s~~~~~~  114 (221)
                      .+++.+.|.||+|...     +..+... -.-..|-+|+|.|++-...-+....
T Consensus       181 ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~  234 (483)
T KOG0780|consen  181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQAR  234 (483)
T ss_pred             hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHH
Confidence            3457799999999432     2222111 1345899999999987654444333

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.87  E-value=0.003  Score=46.29  Aligned_cols=44  Identities=16%  Similarity=0.112  Sum_probs=28.0

Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      |++++|+|+.++.+..+ ..+...+. ....+.|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence            78999999988643221 12222211 1113689999999999954

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PRK14530 adenylate kinase; Provisional

Probab=96.87  E-value=0.00096  Score=50.74  Aligned_cols=22  Identities=23%  Similarity=0.502  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +|+|+|+|||||||+.+.|...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999988643

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=96.86  E-value=0.0011  Score=53.48  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|++|||||||++.+.+-.
T Consensus        32 ~vllGPSGcGKSTlLr~IAGLe   53 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGLE   53 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999998754

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.86  E-value=0.001  Score=48.89  Aligned_cols=21  Identities=19%  Similarity=0.300  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~   42 (221)
                      -.++|+|+.|+|||||++.+.
T Consensus        22 ~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          22 VLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             CEEEEECCCCCCHHHHHHHHh
Confidence            468999999999999999885

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.86  E-value=0.0041  Score=46.66  Aligned_cols=22  Identities=27%  Similarity=0.391  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|+|++|+||||+++.+....
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999887654

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK13949 shikimate kinase; Provisional

Probab=96.85  E-value=0.001  Score=48.61  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +|+|+|++|||||||.+.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988754

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.85  E-value=0.0013  Score=48.13  Aligned_cols=25  Identities=28%  Similarity=0.303  Sum_probs=21.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFT   47 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~   47 (221)
                      .++++|++|+|||||+|-+.+-..+
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAGF~~P   51 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAGFETP   51 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHhccCC
Confidence            5899999999999999998876544

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.84  E-value=0.001  Score=44.47  Aligned_cols=20  Identities=35%  Similarity=0.625  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q psy2300          23 KLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~   42 (221)
                      .++++|++|+|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            47999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.83  E-value=0.00099  Score=49.93  Aligned_cols=22  Identities=27%  Similarity=0.296  Sum_probs=19.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|.|++|||||||++.|.+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999987653

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.81  E-value=0.001  Score=51.38  Aligned_cols=23  Identities=22%  Similarity=0.238  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++++|+.|+|||||++.+++-.
T Consensus        32 ~~~iiGPNGaGKSTLlK~iLGll   54 (254)
T COG1121          32 ITALIGPNGAGKSTLLKAILGLL   54 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37999999999999999999843

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.81  E-value=0.0011  Score=49.17  Aligned_cols=22  Identities=18%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|+|++||||||+++.+..
T Consensus         4 ~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         4 KIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999873

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.81  E-value=0.0011  Score=48.82  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|+|+|++|||||||++.|....
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            47999999999999999998753

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.80  E-value=0.0012  Score=50.30  Aligned_cols=23  Identities=26%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            57999999999999999998764

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.80  E-value=0.0012  Score=49.00  Aligned_cols=25  Identities=28%  Similarity=0.282  Sum_probs=21.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.++|+|++|+|||||++.+++..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3468999999999999999988754

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>KOG3929|consensus

Probab=96.78  E-value=0.00063  Score=52.24  Aligned_cols=92  Identities=16%  Similarity=0.288  Sum_probs=56.4

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-eEEEEEEEeCCCcccccccchhhc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      ..+........|++.|..+  ||++|++.....- +...++...+|........+ ..--..+|+.+|......+....+
T Consensus        37 L~e~~~~~E~~I~~~Gn~~--~tt~I~~~FdR~e-~~~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPi  113 (363)
T KOG3929|consen   37 LAEIAEKFEFFIGSKGNGG--KTTIILRCFDRDE-PPKPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPI  113 (363)
T ss_pred             HHHhhccceeEEEEecCCc--eeEeehhhcCccc-CCCCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcc
Confidence            3444445678899999654  5899999887653 33456665555544433322 112367899999765544433333


Q ss_pred             cC----CcEEEEEEECCChh
Q psy2300          92 RG----AMGFILMYDVTNEE  107 (221)
Q Consensus        92 ~~----~d~vi~v~d~~~~~  107 (221)
                      ..    .-.+|++.|.++++
T Consensus       114 t~~~l~~~slIL~LDls~p~  133 (363)
T KOG3929|consen  114 TGDTLRTFSLILVLDLSKPN  133 (363)
T ss_pred             cccchhhhhheeeeecCChH
Confidence            22    23578899999865

>KOG1424|consensus

Probab=96.77  E-value=0.0028  Score=53.22  Aligned_cols=80  Identities=15%  Similarity=0.145  Sum_probs=53.0

Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhH--HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESF--TSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV  158 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~--~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  158 (221)
                      +.|+.+|+ .+..+|+||.++|+.+|--|  .++..+...+.    +.+..++++||.||....+  ...-..+....++
T Consensus       163 E~WRQLWR-VlErSDivvqIVDARnPllfr~~dLe~Yvke~d----~~K~~~LLvNKaDLl~~~q--r~aWa~YF~~~ni  235 (562)
T KOG1424|consen  163 EIWRQLWR-VLERSDIVVQIVDARNPLLFRSPDLEDYVKEVD----PSKANVLLVNKADLLPPEQ--RVAWAEYFRQNNI  235 (562)
T ss_pred             HHHHHHHH-HHhhcceEEEEeecCCccccCChhHHHHHhccc----cccceEEEEehhhcCCHHH--HHHHHHHHHhcCc
Confidence            34555555 57889999999999997544  33444433332    3578999999999955322  1222234456679


Q ss_pred             eEEEEecCC
Q psy2300         159 EFFETSAKD  167 (221)
Q Consensus       159 ~~~~~Sa~~  167 (221)
                      ++++.||..
T Consensus       236 ~~vf~SA~~  244 (562)
T KOG1424|consen  236 PVVFFSALA  244 (562)
T ss_pred             eEEEEeccc
Confidence            999999887

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=96.77  E-value=0.018  Score=45.80  Aligned_cols=22  Identities=27%  Similarity=0.320  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|.|++||||||+++.|..
T Consensus         7 ~~i~i~G~~GsGKtt~~~~l~~   28 (288)
T PRK05416          7 RLVIVTGLSGAGKSVALRALED   28 (288)
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            3689999999999999999953

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.76  E-value=0.0013  Score=49.72  Aligned_cols=23  Identities=26%  Similarity=0.330  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998764

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.76  E-value=0.0015  Score=49.36  Aligned_cols=25  Identities=24%  Similarity=0.226  Sum_probs=22.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|.|++|||||||.+.|...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998764

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.76  E-value=0.0018  Score=48.86  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999998764

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.74  E-value=0.0014  Score=49.85  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999999764

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.74  E-value=0.0034  Score=50.19  Aligned_cols=152  Identities=16%  Similarity=0.164  Sum_probs=81.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC----CCCC-----------------ccccceeeeeEEEE-------EEe------
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD----SFTS-----------------AFVSTVGIDFKVKT-------VFR------   65 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~----~~~~-----------------~~~~~~~~~~~~~~-------~~~------   65 (221)
                      ..+-|+|+|-.|+||||-|-+|...    .+..                 ......+..+-...       +.+      
T Consensus       138 ~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~A  217 (340)
T COG0552         138 KPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQAA  217 (340)
T ss_pred             CcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHHH
Confidence            4788999999999999988876532    1100                 00000111111100       000      


Q ss_pred             CCeEEEEEEEeCCCcccccccc-------hhhccC-----CcEEEEEEECCCh-hhHHHHHHHHHHHHhhCCCCCcEEEE
Q psy2300          66 HDKRVKLQIWDTAGQERYRTIT-------TAYYRG-----AMGFILMYDVTNE-ESFTSIQDWITQIKTYSWDNAQVILV  132 (221)
Q Consensus        66 ~~~~~~~~i~D~~g~~~~~~~~-------~~~~~~-----~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~p~ivv  132 (221)
                      ...++.+.+.||+|.-......       ...+..     .+-+++|+|++-. +++..++.+-..+       .---+|
T Consensus       218 kar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav-------~l~GiI  290 (340)
T COG0552         218 KARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAV-------GLDGII  290 (340)
T ss_pred             HHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhc-------CCceEE
Confidence            1133668899999943221110       111222     3448888898865 4555554432222       234578


Q ss_pred             EeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       133 ~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      ++|.|-...-.+    +...+...++|+.++-.  |+++++|...=.+.+++
T Consensus       291 lTKlDgtAKGG~----il~I~~~l~~PI~fiGv--GE~~~DL~~Fd~~~fv~  336 (340)
T COG0552         291 LTKLDGTAKGGI----ILSIAYELGIPIKFIGV--GEGYDDLRPFDAEWFVD  336 (340)
T ss_pred             EEecccCCCcce----eeeHHHHhCCCEEEEeC--CCChhhccccCHHHHHH
Confidence            999995322211    22345667888887765  77888876554444443

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.73  E-value=0.0015  Score=48.68  Aligned_cols=23  Identities=22%  Similarity=0.429  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999988764

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.73  E-value=0.0013  Score=49.37  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.+++|++|||||||++.|-..
T Consensus        35 VTAlIGPSGcGKST~LR~lNRm   56 (253)
T COG1117          35 VTALIGPSGCGKSTLLRCLNRM   56 (253)
T ss_pred             eEEEECCCCcCHHHHHHHHHhh
Confidence            3599999999999999887544

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.72  E-value=0.0019  Score=48.61  Aligned_cols=23  Identities=30%  Similarity=0.289  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|+|||||++.+.+..
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999998764

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.72  E-value=0.0015  Score=50.35  Aligned_cols=26  Identities=31%  Similarity=0.415  Sum_probs=22.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..++++|+|.+|||||+|+..++...
T Consensus        12 ~~fr~viIG~sGSGKT~li~~lL~~~   37 (241)
T PF04665_consen   12 DPFRMVIIGKSGSGKTTLIKSLLYYL   37 (241)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHhh
Confidence            46899999999999999999887543

This is thought to be an ATPase involved in viral DNA packaging [].

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.72  E-value=0.0017  Score=48.69  Aligned_cols=23  Identities=26%  Similarity=0.444  Sum_probs=20.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      ++|+|+.|+|||||++.|++...
T Consensus        30 ~ailGPNGAGKSTlLk~LsGel~   52 (259)
T COG4559          30 LAILGPNGAGKSTLLKALSGELS   52 (259)
T ss_pred             EEEECCCCccHHHHHHHhhCccC
Confidence            68999999999999999998754

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.72  E-value=0.0013  Score=49.74  Aligned_cols=23  Identities=22%  Similarity=0.288  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|+|||||++.+.+..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999998754

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.72  E-value=0.0019  Score=49.75  Aligned_cols=23  Identities=35%  Similarity=0.332  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999999764

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	221
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		2e-86
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		5e-85
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		5e-85
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		1e-83
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		7e-54
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		2e-53
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-50
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-50
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-49
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-49
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-49
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-49
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		2e-49
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		9e-49
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		9e-49
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		9e-49
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		1e-48
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-48
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-48
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		7e-48
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		8e-48
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		2e-47
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		3e-47
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		5e-47
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		6e-47
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		7e-47
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-45
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		6e-45
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-44
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-44
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		7e-44
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		2e-41
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		4e-41
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		5e-40
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		7e-40
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-39
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-38
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		6e-37
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		7e-37
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-37
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		3e-36
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		3e-36
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		3e-36
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		4e-36
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		5e-36
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		7e-36
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		9e-36
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		1e-35
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		1e-35
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-35
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-35
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-35
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		2e-35
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-35
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		3e-35
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		3e-35
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		5e-35
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		6e-35
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-34
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		2e-34
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		3e-34
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		6e-34
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		8e-34
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-33
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		5e-33
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		5e-33
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		1e-32
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		1e-32
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-32
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-32
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-32
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-32
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		3e-32
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-32
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		4e-32
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		5e-32
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		8e-32
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		3e-31
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		4e-31
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		6e-31
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		6e-31
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		6e-31
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		9e-31
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		4e-30
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		4e-30
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		5e-30
2efc_B	181	Ara7-GdpATVPS9A Length = 181		9e-30
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-29
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		4e-28
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		5e-28
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		6e-28
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		1e-27
1vg1_A	185	Gdp-bound Rab7 Length = 185		3e-27
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-27
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-27
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		9e-27
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		3e-24
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		2e-23
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		2e-23
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-23
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		3e-23
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		4e-23
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		4e-23
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-22
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		2e-22
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		3e-22
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		3e-22
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		3e-22
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		6e-22
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		8e-22
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		8e-22
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		2e-21
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		6e-21
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		7e-21
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		7e-21
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		7e-21
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		8e-21
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		9e-21
1byu_A	216	Canine Gdp-Ran Length = 216		9e-21
2bku_A	177	Kap95p:rangtp Complex Length = 177		1e-20
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		3e-20
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		5e-20
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		6e-20
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		7e-20
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		7e-20
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		8e-20
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		9e-20
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		1e-19
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		1e-19
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-19
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		1e-19
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		6e-19
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		7e-19
3icq_B	171	Karyopherin Nuclear State Length = 171		7e-19
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		8e-19
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		1e-18
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		1e-18
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-18
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		2e-18
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		2e-18
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-18
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		2e-18
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		2e-18
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-18
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-18
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		3e-18
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		8e-18
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-17
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		8e-17
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		9e-17
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		2e-16
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		3e-16
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		8e-16
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		9e-16
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		9e-16
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		2e-15
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		2e-15
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		2e-15
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-15
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-15
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-15
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		2e-15
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		2e-15
1s1c_A	183	Crystal Structure Of The Complex Between The Human		3e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		3e-15
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		3e-15
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		3e-15
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		3e-15
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		3e-15
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		3e-15
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		3e-15
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		4e-15
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		4e-15
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		4e-15
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		5e-15
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		5e-15
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		6e-15
1mh1_A	186	Small G-Protein Length = 186		6e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		6e-15
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		6e-15
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		7e-15
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		7e-15
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		7e-15
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		7e-15
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		7e-15
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		7e-15
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		7e-15
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		7e-15
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		8e-15
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		8e-15
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		8e-15
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		8e-15
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		9e-15
1wq1_R	166	Ras-Rasgap Complex Length = 166		9e-15
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		9e-15
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		9e-15
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		9e-15
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		9e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		9e-15
6q21_A	171	Molecular Switch For Signal Transduction: Structura		9e-15
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		9e-15
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-14
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-14
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		1e-14
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		1e-14
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-14
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		1e-14
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-14
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-14
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		2e-14
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		2e-14
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-14
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		2e-14
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		2e-14
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-14
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		2e-14
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-14
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		3e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-14
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		3e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-14
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		4e-14
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		5e-14
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		5e-14
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		5e-14
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		5e-14
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		5e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		5e-14
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		5e-14
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		6e-14
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		6e-14
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		6e-14
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		7e-14
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		7e-14
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		8e-14
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-14
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		8e-14
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		9e-14
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-13
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		1e-13
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		1e-13
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		1e-13
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		1e-13
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		1e-13
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		1e-13
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		1e-13
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		1e-13
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		1e-13
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		1e-13
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		2e-13
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		2e-13
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-13
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		2e-13
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		2e-13
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-13
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		2e-13
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		2e-13
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		2e-13
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		2e-13
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		2e-13
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-13
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-13
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-13
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		5e-13
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		5e-13
2kb0_A	178	Cdc42(T35a) Length = 178		7e-13
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		7e-13
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		8e-13
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		9e-13
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		1e-12
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		1e-12
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		1e-12
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		2e-12
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		2e-12
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		2e-12
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		2e-12
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		8e-12
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		2e-11
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-10
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		6e-10
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		9e-10
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		7e-09
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		7e-09
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		7e-09
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		4e-08
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		5e-08
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		6e-08
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		6e-08
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		7e-08
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		8e-08
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		8e-08
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		8e-08
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-07
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-07
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		4e-07
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		5e-07
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		5e-07
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		5e-07
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		6e-07
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		1e-06
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		2e-06
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		3e-06
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		4e-06
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		4e-06
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		5e-06
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		5e-06
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		6e-06
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		9e-06
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		2e-05
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		2e-05
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		2e-05
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		3e-05
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		4e-05
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		4e-05
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		4e-05
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		5e-05
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		6e-05
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		2e-04
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		3e-04
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		8e-04

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  314 bits (805), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 149/192 (77%), Positives = 169/192 (88%), Gaps = 1/192 (0%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           FDY FK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFKVKT++R+DKR+KLQIWDT
Sbjct: 5   FDYXFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 64
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AG ERYRTITTAYYRGA GFIL YD+TNEESF ++QDW TQIKTYSWDNAQV+LVGNKCD
Sbjct: 65  AGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCD 124
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD-SDPNL 196
            EDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLVD+IC+K SESLD +DP +
Sbjct: 125 XEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKXSESLDTADPAV 184
Query: 197 VAGPKGTRLTEQ 208
               +G +LT+Q
Sbjct: 185 TGAKQGPQLTDQ 196

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  310 bits (793), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 145/173 (83%), Positives = 161/173 (93%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           NFDYMFKLLIIGNSSVGKTSFLFRYADD+FT AFVSTVGIDFKVKTV+RH+KRVKLQIWD
Sbjct: 19  NFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWD 78
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQVILVGNKC
Sbjct: 79  TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKC 138
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           DME+ERV+  E+G+ LAE LG +FFE SAK+N++V+  FERLVD ICDKMS+S
Sbjct: 139 DMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMSDS 191

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  310 bits (793), Expect = 5e-85,   Method: Compositional matrix adjust.
 Identities = 144/169 (85%), Positives = 159/169 (94%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           NFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFKVKT++R+DKR+KLQIWD
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWD 60
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQV+LVGNKC
Sbjct: 61  TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKC 120
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           DMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLVD+IC+K
Sbjct: 121 DMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  305 bits (781), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 141/170 (82%), Positives = 158/170 (92%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           DYMFKLL+IGNSSVGKTSFLFRYADDSFT AFVSTVGIDFKVKTV+RHDKR+KLQIWDTA
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTA 79
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQERYRTITTAYYRGAMGF+LMYD+ N+ESF ++QDW TQIKTYSWDNAQVILVGNKCD+
Sbjct: 80  GQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDL 139
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           EDERV+  E G+ LA+ LG EFFE SAK+N+NVK VFERLVD+IC+KM+E
Sbjct: 140 EDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKMNE 189

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  206 bits (525), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 95/174 (54%), Positives = 136/174 (78%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           + +DY+FKLL+IG+S VGKT  LFR+++D+F S F+ST+GIDFK++T+    KR+KLQIW
Sbjct: 3   KTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 62
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+RTITTAYYRGAMG +L+YD+TNE+SF +I++WI  I+ ++  + + +++GNK
Sbjct: 63  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNK 122
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           CD+ D+R +S ERG+ LA   G++F ETSAK N+NV+  F  L   I  KM ++
Sbjct: 123 CDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKN 176

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  205 bits (521), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 95/172 (55%), Positives = 134/172 (77%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           + DY+FKLL+IG+S VGKT  LFR+++D+F S F+ST+GIDFK++T+    KR+KLQIWD
Sbjct: 2   HMDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 61
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQER+RTITTAYYRGAMG +L+YD+TNE+SF +I++WI  I+ ++  + + +++GNKC
Sbjct: 62  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKC 121
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           D+ D+R +S ERG+ LA   G++F ETSAK N+NV+  F  L   I  KM +
Sbjct: 122 DVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  195 bits (496), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 84/161 (52%), Positives = 127/161 (78%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+   +K VKLQIWDT
Sbjct: 6   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDT 65
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT+ +SF +++ WI +I  Y+ +N   +LVGNKCD
Sbjct: 66  AGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCD 125
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           +  +RV++ + G+ LA+S G++F ETSAK+  NV+  F  +
Sbjct: 126 LVSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTM 166

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  194 bits (493), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 87/182 (47%), Positives = 130/182 (71%), Gaps = 6/182 (3%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 13  YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 72
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD
Sbjct: 73  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 132
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV 197
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M       P   
Sbjct: 133 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG------PGAT 186
Query: 198 AG 199
           AG
Sbjct: 187 AG 188

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  192 bits (489), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 84/169 (49%), Positives = 127/169 (75%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 22  YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 81
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD
Sbjct: 82  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 141
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 142 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 190

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  192 bits (489), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 84/169 (49%), Positives = 127/169 (75%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 3   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 62
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD
Sbjct: 63  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 122
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 123 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  192 bits (488), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 84/169 (49%), Positives = 126/169 (74%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK   L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 13  YDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 72
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD
Sbjct: 73  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 132
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 133 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  192 bits (487), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 89/171 (52%), Positives = 132/171 (77%), Gaps = 1/171 (0%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +++D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQ+W
Sbjct: 15  KSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLW 74
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+RTITTAYYRGAMG IL+YDVT+E +FT+I+ W   +  ++ D AQ++LVGNK
Sbjct: 75  DTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNK 134
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
            DME  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 135 SDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 184

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  191 bits (486), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 82/163 (50%), Positives = 125/163 (76%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           + +  +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KL
Sbjct: 25  SXNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKL 84
Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LV
Sbjct: 85  QIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLV 144
Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           GNKCD+  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F
Sbjct: 145 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSF 187

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  189 bits (481), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 89/168 (52%), Positives = 129/168 (76%), Gaps = 1/168 (0%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTITTAYYRGAMG IL+YD+T+E +FT+I+ W   +  ++ D AQ++LVGNK DM
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           E  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 121 E-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  189 bits (480), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 85/171 (49%), Positives = 127/171 (74%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IGNS VGK+  L R++DD++T+ ++ST+G+DFK+KTV    K VKLQIWDT
Sbjct: 5   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 64
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRG+ G I++YDVT++ESF  ++ W+ +I  Y+      +LVGNKCD
Sbjct: 65  AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 124
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           ++D+RV+ ++  K  A++  + F ETSA D+ NV+  F  +   I + MS+
Sbjct: 125 LKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQ 175

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  189 bits (480), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 83/169 (49%), Positives = 126/169 (74%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +D +FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 3   YDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 62
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD
Sbjct: 63  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCD 122
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 123 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  189 bits (480), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 85/171 (49%), Positives = 127/171 (74%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IGNS VGK+  L R++DD++T+ ++ST+G+DFK+KTV    K VKLQIWDT
Sbjct: 5   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 64
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRG+ G I++YDVT++ESF  ++ W+ +I  Y+      +LVGNKCD
Sbjct: 65  AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 124
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           ++D+RV+ ++  K  A++  + F ETSA D+ NV+  F  +   I + MS+
Sbjct: 125 LKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQ 175

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  189 bits (480), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 83/169 (49%), Positives = 126/169 (74%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 5   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 64
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVG KCD
Sbjct: 65  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCD 124
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 125 LTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 173

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  188 bits (477), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 88/166 (53%), Positives = 128/166 (77%), Gaps = 1/166 (0%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQ+WDTAGQ
Sbjct: 7   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           ER+RTITTAYYRGAMG IL+YDVT+E +FT+I+ W   +  ++ D AQ++LVGNK DME 
Sbjct: 67  ERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME- 125
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
            RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 126 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 171

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  186 bits (473), Expect = 7e-48,   Method: Compositional matrix adjust.
 Identities = 82/169 (48%), Positives = 125/169 (73%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 6   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 65
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ES+ +++ W+ +I  Y+ +N   +LVGNK D
Sbjct: 66  AGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSD 125
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+     K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 126 LTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  186 bits (472), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 82/169 (48%), Positives = 125/169 (73%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDT
Sbjct: 6   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 65
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRGA G I++YDVT++ES+ +++ W+ +I  Y+ +N   +LVGNK D
Sbjct: 66  AGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSD 125
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           +  ++V+     K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 126 LTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRM 174

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  185 bits (470), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 82/158 (51%), Positives = 121/158 (76%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IGNS VGK+  L R++DD++T+ ++ST+G+DFK+KTV    K VKLQIWDT
Sbjct: 18  YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 77
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRG+ G I++YDVT++ESF  ++ W+ +I  Y+      +LVGNKCD
Sbjct: 78  AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 137
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           ++D+RV+ ++  K  A++  + F ETSA D+ NV+  F
Sbjct: 138 LKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAF 175

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  184 bits (467), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 83/189 (43%), Positives = 134/189 (70%), Gaps = 11/189 (5%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVK-TVFRHD----- 67
           +D ++DY+ K L +G+S VGKTS L++Y D  F S F++TVGIDF+ K  V+R +     
Sbjct: 4   SDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGA 63
Query: 68  ----KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS 123
               +R+ LQ+WDTAG ER+R++TTA++R AMGF+L++D+TNE+SF ++++WI+Q++ ++
Sbjct: 64  VGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHA 123
Query: 124 W-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           + +N  ++L GNK D+ED+R +  E  + LAE  G+ +FETSA +  N+    E L+D+I
Sbjct: 124 YSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183
Query: 183 CDKMSESLD 191
             +M  S+D
Sbjct: 184 MKRMERSVD 192

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  183 bits (465), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 87/168 (51%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQIWDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTITTAYYRGA G IL+YD+T+E +FT+I+ W   +  ++ D AQ++LVGNK D 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDX 120
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           E  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 121 E-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  183 bits (465), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 81/164 (49%), Positives = 122/164 (74%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER 142
           +RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD+  ++
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKK 120
Query: 143 VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 121 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  183 bits (464), Expect = 7e-47,   Method: Compositional matrix adjust.
 Identities = 87/168 (51%), Positives = 127/168 (75%), Gaps = 1/168 (0%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQ+WDTA
Sbjct: 1   DSIXKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTA 60
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTITTAYYRGA G IL+YDVT+E +FT+I+ W   +  ++ D AQ++LVGNK D 
Sbjct: 61  GQERFRTITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDX 120
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           E  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 121 E-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  178 bits (451), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/220 (38%), Positives = 142/220 (64%), Gaps = 17/220 (7%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK------ 68
           D ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V    +      
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 69  ----RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
               +V LQ+WDTAG ER+R++TTA++R AMGF+LM+D+T+++SF ++++W++Q++  ++
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 124
Query: 125 -DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
            +N  ++L+GNK D+ D+R ++  + + LAE  G+ +FETSA    NV+   E L+D+I 
Sbjct: 125 CENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIM 184
Query: 184 DKMSESLDSD--PNLVAGPKGTRLTEQPQRNNPINPNCNC 221
            +M + ++    P+ V G    +L  +     P    C C
Sbjct: 185 KRMEKCVEKTQVPDTVNGGNSGKLDGE----KPAEKKCAC 220

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  176 bits (447), Expect = 6e-45,   Method: Compositional matrix adjust.
 Identities = 80/196 (40%), Positives = 137/196 (69%), Gaps = 13/196 (6%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-------- 68
           ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V  + +        
Sbjct: 21  DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 80
Query: 69  --RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-D 125
             +V LQ+WDTAGQER+R++TTA++R AMGF+LM+D+T+++SF ++++W++Q++  ++ +
Sbjct: 81  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCE 140
Query: 126 NAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           N  ++L+GNK D+ D+R ++  + + LA+  G+ +FETSA    NV+   E L+D+I  +
Sbjct: 141 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKR 200
Query: 186 MSESLDSD--PNLVAG 199
           M + ++    P+ V G
Sbjct: 201 MEQCVEKTQIPDTVNG 216

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  176 bits (445), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 81/175 (46%), Positives = 130/175 (74%), Gaps = 1/175 (0%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +++D++FKLLIIG+S VGK+S L R+AD++F+ ++++T+G+DFK++TV  + ++VKLQIW
Sbjct: 4   RDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIW 63
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+RTIT+ YYRG  G I++YDVT+ ESF +++ W+ +I   + D+   ILVGNK
Sbjct: 64  DTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQ-NCDDVCRILVGNK 122
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
            D  + +V+  E     A  +G++ FETSAK+NVNV+ +F  + +++     ++L
Sbjct: 123 NDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNL 177

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  174 bits (440), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 78/188 (41%), Positives = 132/188 (70%), Gaps = 11/188 (5%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK------ 68
           D ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V    +      
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 69  ----RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
               +V LQ+WDTAG ER+R++TTA++R AMGF+LM+D+T+++SF ++++W++Q++  ++
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAY 124
Query: 125 -DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
            +N  ++L+GNK D+ D+R ++  + + LAE  G+ +FETSA    NV+   E L+D+I 
Sbjct: 125 CENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIM 184
Query: 184 DKMSESLD 191
            +M + ++
Sbjct: 185 KRMEKCVE 192

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  173 bits (438), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 83/169 (49%), Positives = 121/169 (71%), Gaps = 1/169 (0%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D+  +++IIG+  VGKTS + R+ DD+F  A  STVG+DFK+KTV    K+++LQIWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+ +IT+AYYR A G IL+YD+T +E+F  +  W+  I  Y+ ++A+++LVGNK D 
Sbjct: 84  GQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDC 143
Query: 139 EDERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           E +R I+ ++G+  A+ + G+ F E SAKDN NV  +F +LVD I  KM
Sbjct: 144 ETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score =  165 bits (417), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 78/198 (39%), Positives = 132/198 (66%), Gaps = 13/198 (6%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK------ 68
           D ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V    +      
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 69  ----RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
               +V LQ+WDTAG ER+R++TTA++R A GF+L +D+T+++SF ++++W +Q++  ++
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAY 124
Query: 125 -DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
            +N  ++L+GNK D+ D+R ++  + + LAE  G+ +FETSA    NV+   E L+D+I 
Sbjct: 125 CENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIX 184
Query: 184 DKMSESLDSD--PNLVAG 199
            +  + ++    P+ V G
Sbjct: 185 KRXEKCVEKTQVPDTVNG 202

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  164 bits (415), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 75/188 (39%), Positives = 128/188 (68%), Gaps = 11/188 (5%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK------ 68
           D ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V    +      
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGAS 64
Query: 69  ----RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
               +V LQ+WDTAG ER+R++TTA++R A GF+L +D+T+++SF ++++W +Q++  ++
Sbjct: 65  GKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAY 124
Query: 125 -DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
            +N  ++L+GNK D+ D+R ++  + + LAE  G+ +FETSA    NV+   E L+D+I 
Sbjct: 125 CENPDIVLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIX 184
Query: 184 DKMSESLD 191
            +  + ++
Sbjct: 185 KRXEKCVE 192

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  160 bits (405), Expect = 5e-40,   Method: Compositional matrix adjust.
 Identities = 77/159 (48%), Positives = 110/159 (69%), Gaps = 1/159 (0%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           +D  FK++++G+S VGKT  L R+ D +F +  F+STVGIDF+ K +     +VKLQ+WD
Sbjct: 7   YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWD 66
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQER+R++T AYYR A   +L+YDVTN+ SF +IQ W+T+I  Y+  +  ++L+GNK 
Sbjct: 67  TAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKV 126
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           D   ERV+  E G+ LA+  G+ F ETSAK  +NV   F
Sbjct: 127 DSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAF 165

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  160 bits (404), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 81/215 (37%), Positives = 127/215 (59%), Gaps = 10/215 (4%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           ++D +FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    KR+K QIWD
Sbjct: 9   DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWD 68
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYR IT+AYYRGA+G +++YD++   S+ +   W+++++  + DN  V L+GNK 
Sbjct: 69  TAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKS 128
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE-------- 188
           D+   R +  E  K  A+   + F ETSA ++ NV   FE L++ I  K+S+        
Sbjct: 129 DLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDS 188
Query: 189 SLDSDPNLVAGPKGT--RLTEQPQRNNPINPNCNC 221
           S + + N  + P G    LT  P  N   N N  C
Sbjct: 189 SANGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  157 bits (398), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 73/174 (41%), Positives = 120/174 (68%), Gaps = 3/174 (1%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +++D++FK+++IGN+ VGKT  + R+    F     +T+G+DF +KTV  + ++VKLQIW
Sbjct: 21  EDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIW 80
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+R+IT +YYR A   IL YD+T EESF  + +W+ +I+ Y+ +    +LVGNK
Sbjct: 81  DTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNK 140
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
            D+ + R +S +R +  +E+  + + ETSAK++ NV+ +F   +D+ C  +SE+
Sbjct: 141 IDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF---LDLACRLISEA 191

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/165 (46%), Positives = 110/165 (66%), Gaps = 1/165 (0%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D+ +D++FKL+++G++SVGKT  + R+   +F+    ST+G+DF +KT+    KRVKLQI
Sbjct: 23  DEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQI 82
Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+RTIT +YYR A G IL YD+T   SF S+  WI  ++ Y+  N   +L+GN
Sbjct: 83  WDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGN 142
Query: 135 KCDMEDERVISFERGKHLAESLGVE-FFETSAKDNVNVKGVFERL 178
           K D+ + R +S    + LAE   +    ETSAKD+ NV+  F R+
Sbjct: 143 KSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRV 187

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  150 bits (378), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 71/168 (42%), Positives = 115/168 (68%), Gaps = 1/168 (0%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWD 76
           +DY+FK+++IG+S VGK++ L R+  D F     ST+G++F  K++  +++K +K QIWD
Sbjct: 4   YDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWD 63
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYR IT+AYYRGA+G +L+YD+T + SF +I+ W+ +++  +  N  ++LVGNK 
Sbjct: 64  TAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKS 123
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           D++  RVI+       A+   + F ETSA +  NV+  F +L++ I +
Sbjct: 124 DLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYN 171

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  150 bits (378), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 65/165 (39%), Positives = 110/165 (66%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QI
Sbjct: 23  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82
Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGN
Sbjct: 83  WDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           K D+   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 187

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  150 bits (378), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 63/115 (54%), Positives = 94/115 (81%)
Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY 83
           LL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KLQIWDTAGQER+
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 84  RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LVGNKCD+
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDL 115

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  148 bits (373), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 64/163 (39%), Positives = 110/163 (67%)
Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           ++DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWD
Sbjct: 16  SYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWD 75
Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGNK 
Sbjct: 76  TAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKS 135
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 136 DLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 178

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 69/157 (43%), Positives = 104/157 (66%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ ++LQ+WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           R +S E G+  A+ L V F ETSAK   NVK +F R+
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 76/200 (38%), Positives = 118/200 (59%), Gaps = 5/200 (2%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ ++LQ+WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 133
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPK 201
           R +S E G+  A+ L V F ETSAK   NVK +F R+   +    S    S  +++    
Sbjct: 134 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMI---- 189
Query: 202 GTRLTEQPQRNNPINPNCNC 221
             +L E+PQ        C+C
Sbjct: 190 DIKL-EKPQEQPVSEGGCSC 208

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  147 bits (372), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 70/163 (42%), Positives = 106/163 (65%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+LQ+WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADK 122
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           R I+ E G+  A+ L V F ETSAK   NVK +F R+   + +
Sbjct: 123 RQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  147 bits (370), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 109/165 (66%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QI
Sbjct: 23  DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 82
Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAG ERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGN
Sbjct: 83  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGN 142
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           K D+   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 143 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 187

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  147 bits (370), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 70/157 (44%), Positives = 104/157 (66%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+LQ+WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDK 134
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           R +S E G+  A+ L V F ETSAK   NVK +F R+
Sbjct: 135 RQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 171

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  146 bits (369), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 70/157 (44%), Positives = 104/157 (66%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+LQ+WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 121
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           R +S E G+  A+ L V F ETSAK   NVK +F R+
Sbjct: 122 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 158

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  146 bits (368), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 77/169 (45%), Positives = 104/169 (61%), Gaps = 2/169 (1%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D++     K+LIIG S VGK+S L R+ DD+F     +T+G+DFKVKT+     + KL I
Sbjct: 9   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 68
Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV-ILVG 133
           WDTAGQER+RT+T +YYRGA G IL+YDVT  ++F  + +W+ +++TY   N  V  LVG
Sbjct: 69  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVG 128
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           NK D E+ R +    G   A      F E SAK    V+  FE LV+ I
Sbjct: 129 NKIDKEN-REVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  145 bits (367), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 68/175 (38%), Positives = 114/175 (65%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
             ++++++FK+++IG S VGKT+ L R+  + F+    +T+G++F  +TV      VK Q
Sbjct: 18  GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQ 77
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAG ERYR IT+AYYRGA+G +L++D+T  +++  ++ W+ ++  ++     V+LVG
Sbjct: 78  IWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVG 137
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           NK D+   R +  E  +  AE+ G+ F ETSA D+ NV+  FE ++  I  K+S+
Sbjct: 138 NKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSK 192

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 64/165 (38%), Positives = 108/165 (65%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QI
Sbjct: 5   DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQI 64
Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAG ERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  + LVGN
Sbjct: 65  WDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGN 124
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           K D+   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 125 KSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 169

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 68/173 (39%), Positives = 114/173 (65%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           ++++++FK+++IG S VGKT+ L R+  + F+    +T+G++F  +TV      VK QIW
Sbjct: 5   EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIW 64
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAG ERYR IT+AYYRGA+G +L++D+T  +++  ++ W+ ++  ++     V+LVGNK
Sbjct: 65  DTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNK 124
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
            D+   R +  E  +  AE+ G+ F ETSA D+ NV+  FE ++  I  K+S+
Sbjct: 125 SDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSK 177

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 66/176 (37%), Positives = 114/176 (64%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGNK D
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSD 193
           +   R +  +  +  AE   + F ETSA D+ NV+  F+ ++  I   +S+   +D
Sbjct: 122 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIAD 177

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 102/162 (62%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A  N+ Y+FK +IIG+  VGK+  L ++ +  F +    T+G++F  + +    +++KLQ
Sbjct: 8   APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQ 67
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAGQER+R +T +YYRGA G +++YD+T   ++  +  W+T  +  +  N  +IL+G
Sbjct: 68  IWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 127
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           NK D+E +R +++E  K  AE  G+ F E SAK   NV+  F
Sbjct: 128 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF 169

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  144 bits (364), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 69/157 (43%), Positives = 103/157 (65%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+LQ+WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 136
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           R +S E G+  A+ L V F ETSAK   NVK +F R+
Sbjct: 137 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  144 bits (364), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 108/162 (66%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWDT
Sbjct: 5   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 64
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AG ERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGNK D
Sbjct: 65  AGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 124
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 125 LRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 166

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  144 bits (363), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 69/157 (43%), Positives = 103/157 (65%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+LQ+WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           R +S E G+  A+ L V F ETSAK   NVK +F R+
Sbjct: 127 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 163

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  144 bits (362), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 63/162 (38%), Positives = 107/162 (66%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AG ERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  + LVGNK D
Sbjct: 62  AGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSD 121
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++
Sbjct: 122 LRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTIL 163

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  144 bits (362), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 69/176 (39%), Positives = 112/176 (63%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           A   ++DY+FK+++IG+S VGK++ L R+  D F     ST+G++F  +T+   +K++K 
Sbjct: 2   AMGYDYDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKA 61
Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAG ERYR IT+AYYRGA+G +++YD++   S+ +   W+T+++  + DN  V L+
Sbjct: 62  QIWDTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLI 121
Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           GNK D+   R +  +  K+ A    + F ETSA ++ NV   F  L+  I   +S+
Sbjct: 122 GNKSDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSK 177

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  142 bits (359), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/171 (40%), Positives = 103/171 (60%)
Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  + V    K++KLQIWDTAG
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 79
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QE +R+IT +YYRGA G +L+YD+T  E+F  +  W+   + +S  N  ++L+GNK D+E
Sbjct: 80  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 139
Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
             R +  E G+  A   G+ F ETSAK   NV+  F      I  K+ + L
Sbjct: 140 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  142 bits (358), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 62/162 (38%), Positives = 101/162 (62%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A  N+ Y+FK +IIG+  VGK+  L ++ +  F +    T+G++F  + +    +++KLQ
Sbjct: 23  APYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQ 82
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAGQ R+R +T +YYRGA G +++YD+T   ++  +  W+T  +  +  N  +IL+G
Sbjct: 83  IWDTAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIG 142
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           NK D+E +R +++E  K  AE  G+ F E SAK   NV+  F
Sbjct: 143 NKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF 184

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 70/176 (39%), Positives = 110/176 (62%), Gaps = 1/176 (0%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D++FK L+IG++  GK+  L ++ ++ F      T+G++F  + V    K VKLQIWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+R++T +YYRGA G +L+YD+T+ E++ S+  W+T  +T +  N  VIL GNK D+
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDL 142
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP 194
           + ER ++F      A+   + F ETSA    NV+  F +    I +K+ +S + DP
Sbjct: 143 DPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKI-DSGELDP 197

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  140 bits (353), Expect = 6e-34,   Method: Compositional matrix adjust.
 Identities = 67/170 (39%), Positives = 107/170 (62%), Gaps = 4/170 (2%)
Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y FK++++G   VGKTS + RY ++ F    ++T+G  F  K +    KRV L IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+  +   YYR + G IL+YD+T+E+SF  +++W+ +++    +   + +VGNK D+E
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
            ER +S +  +  AES+G + + TSAK N   KG+ E  +D +C +M E+
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQN---KGIEELFLD-LCKRMIET 170

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  140 bits (352), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 99/158 (62%)
Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           + Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  + +    K++KLQIWDT
Sbjct: 7   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDT 66
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQE +R+IT +YYRGA G +L+YD+T  ++F  +  W+   + +S  N  ++L+GNK D
Sbjct: 67  AGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSD 126
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           +E  R +  E G+  A   G+ F ETSAK   NV+  F
Sbjct: 127 LESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAF 164

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  139 bits (351), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 68/179 (37%), Positives = 111/179 (62%), Gaps = 1/179 (0%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           + +D++FK L+IGN+  GK+  L ++ +  F      T+G++F  K +    K VKLQIW
Sbjct: 5   ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 64
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+R++T +YYRGA G +L+YD+T+ E++ ++ +W+T  +  +  N  +IL GNK
Sbjct: 65  DTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNK 124
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP 194
            D++ +R ++F      A+   + F ETSA    NV+  F +    I +K+ ES + DP
Sbjct: 125 KDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKI-ESGELDP 182

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  137 bits (345), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 66/170 (38%), Positives = 106/170 (62%), Gaps = 4/170 (2%)
Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y FK++++G   VGKTS + RY ++ F    ++T+   F  K +    KRV L IWDTAG
Sbjct: 19  YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 78
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+  +   YYR + G IL+YD+T+E+SF  +++W+ +++    +   + +VGNK D+E
Sbjct: 79  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 138
Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
            ER +S +  +  AES+G + + TSAK N   KG+ E  +D +C +M E+
Sbjct: 139 KERHVSIQEAESYAESVGAKHYHTSAKQN---KGIEELFLD-LCKRMIET 184

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  137 bits (345), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 66/170 (38%), Positives = 106/170 (62%), Gaps = 4/170 (2%)
Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y FK++++G   VGKTS + RY ++ F    ++T+   F  K +    KRV L IWDTAG
Sbjct: 5   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAG 64
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+  +   YYR + G IL+YD+T+E+SF  +++W+ +++    +   + +VGNK D+E
Sbjct: 65  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 124
Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
            ER +S +  +  AES+G + + TSAK N   KG+ E  +D +C +M E+
Sbjct: 125 KERHVSIQEAESYAESVGAKHYHTSAKQN---KGIEELFLD-LCKRMIET 170

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  136 bits (342), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 97/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 128 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 161

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  136 bits (342), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 97/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  135 bits (341), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  135 bits (339), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 127
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK + NV  +F
Sbjct: 128 RAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIF 161

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  134 bits (338), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 63/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 127 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 160

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  134 bits (337), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 63/156 (40%), Positives = 103/156 (66%), Gaps = 6/156 (3%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K+++ G+++VGK+SFL R   + F     +T+G+DF++KT+    +R  LQ+WDTAGQE
Sbjct: 29  YKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQE 88
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED- 140
           R+R+I  +Y+R A G +L+YDVT E+SF +I++W+  I+  + +   ++LVGNK D+ D 
Sbjct: 89  RFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDT 148
Query: 141 -----ERVISFERGKHLAESLGVEFFETSAKDNVNV 171
                ++ +    G+ LA + G  F ETSAKD  N+
Sbjct: 149 AATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNI 184

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  134 bits (336), Expect = 5e-32,   Method: Compositional matrix adjust.
 Identities = 63/172 (36%), Positives = 105/172 (61%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
             + +D++FK L+IGN+  GK+  L ++ +  F      T+G++F  K +    K VKLQ
Sbjct: 4   GSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQ 63
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAGQER+R++T +YYRGA G +L+YD+T+ E++ ++ +W+T  +  +  N  +IL G
Sbjct: 64  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCG 123
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           NK D++ +R ++F      A+   + F ETSA    +V+  F +    I +K
Sbjct: 124 NKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKILNK 175

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  133 bits (334), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 62/154 (40%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ ++
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK 125
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK ++NV  +F
Sbjct: 126 RAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF 159

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 63/156 (40%), Positives = 99/156 (63%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+ +G  +VGKTS + R+  D+F + + ST+GIDF  KT++  +  V+LQ+WDTAGQE
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   I++YD+TN +SF +   WI  I      +  + LVGNK D+ D 
Sbjct: 62  RFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDL 121
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER 177
           R +++E G   A+     F ETSAK   N+K +F++
Sbjct: 122 RKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFKK 157

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  130 bits (328), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 62/170 (36%), Positives = 104/170 (61%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           + +D++FK L+IGN+  GK+  L ++ +  F      T+G++F  K +    K VKLQIW
Sbjct: 3   ETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIW 62
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAG ER+R++T +YYRGA G +L+YD+T+ E++ ++ +W+T  +  +  N  +IL GNK
Sbjct: 63  DTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNK 122
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
            D++ +R ++F      A+   + F ETSA    +V+  F +    I +K
Sbjct: 123 KDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKILNK 172

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  130 bits (327), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 59/154 (38%), Positives = 96/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  ++V   D  VK +IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TN+E+F   + W+ +++  +  +  + L GNK D+ ++
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANK 128
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R++ +E  +  A+   + F ETSAK  +NV  +F
Sbjct: 129 RMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLF 162

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  130 bits (327), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 94/154 (61%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TN ++F   ++W+ +++  +  N  + L GNK D+  +
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 123
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK  +NV  +F
Sbjct: 124 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIF 157

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  130 bits (327), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 56/155 (36%), Positives = 97/155 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ ++G++ VGK+S + R+  D F      T+G  F  KTV   ++  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+ ++   YYRG+   +++YD+T ++SF +++ W+ ++K +  +N  + + GNKCD+ D 
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDI 143
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           R +  +  K  AES+G    ETSAK+ +N++ +F+
Sbjct: 144 REVPLKDAKEYAESIGAIVVETSAKNAINIEELFQ 178

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 58/154 (37%), Positives = 98/154 (63%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ ++G++ VGK+S ++R+ +DSF      T+G  F  KTV   ++  K  IWDTAGQE
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R +   YYRG+   I++YD+T EE+F+++++W+ +++ +   +  V + GNKCD+ D 
Sbjct: 66  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 125
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R +     K  A+S+   F ETSAK+ +N+  +F
Sbjct: 126 REVMERDAKDYADSIHAIFVETSAKNAININELF 159

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  127 bits (320), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 59/154 (38%), Positives = 93/154 (60%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TN ++F   ++W+ +++  +  N  + L GNK D+  +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK  +NV  +F
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIF 159

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  127 bits (319), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 97/154 (62%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ ++G++ VGK+S ++R+ +DSF      T+G  F  KTV   ++  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R +   YYRG+   I++YD+T EE+F+++++W+ +++ +   +  V + GNKCD+ D 
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R +     K  A+S+   F ETSAK+ +N+  +F
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELF 160

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  127 bits (319), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 59/154 (38%), Positives = 93/154 (60%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G S+VGK+S + R+    F     ST+   F  +TV   D  VK +IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           RY ++   YYRGA   I++YD+TN ++F   ++W+ +++  +  N  + L GNK D+  +
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASK 125
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           R + F+  +  A+   + F ETSAK  +NV  +F
Sbjct: 126 RAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIF 159

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  126 bits (316), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 64/163 (39%), Positives = 95/163 (58%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           AA  N     KL+++G+   GK+S + R+  D F     ST+G  F  +T+  +D  VK 
Sbjct: 4   AAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKF 63
Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           +IWDTAGQERY ++   YYRGA   I+++DVTN+ SF   + W+ +++     N  + L 
Sbjct: 64  EIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALA 123
Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           GNK D+ D R ++ E  +  A+  G+ F ETSAK   NVK +F
Sbjct: 124 GNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIF 166

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 65/165 (39%), Positives = 105/165 (63%), Gaps = 7/165 (4%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAG 79
           + K++I+G+S VGKTS + RY +D ++  + +T+G DF  K V    DK   +Q+WDTAG
Sbjct: 8   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 67
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNK 135
           QER++++  A+YRGA   +L+YDVTN  SF +I+ W    +      S +    +++GNK
Sbjct: 68  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 127
Query: 136 CDMED-ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERL 178
            D E+ ++++S +  + LA+SLG +  F TSAK+ +NV   FE +
Sbjct: 128 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI 172

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 62/163 (38%), Positives = 96/163 (58%), Gaps = 5/163 (3%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK+++IG+S+VGKT   +R+    F     +T+G+DF+ + V    +R+K+Q+WDTAGQ
Sbjct: 29  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 88
Query: 81  ERYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN-AQVILVGNKCDM 138
           ER+R ++   YYR     + +YD TN  SF S+  WI + K +   N    ILVGNKCD+
Sbjct: 89  ERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 148
Query: 139 EDERVISFERGKHLAESLGVEFFETSAK---DNVNVKGVFERL 178
                +  +  +  A++     FETSAK   DN +V+ +F  L
Sbjct: 149 RSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTL 191

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  120 bits (301), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 61/159 (38%), Positives = 96/159 (60%), Gaps = 1/159 (0%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++++GN +VGK+S + RY    FT  +  T+G+DF  + +  +D+ V+L +WDTAGQE
Sbjct: 6   IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
            +  IT AYYRGA   +L++  T+ ESF +I  W  ++     D     LV NK D+ D+
Sbjct: 66  EFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD-IPTALVQNKIDLLDD 124
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
             I  E  + LA+ L + F+ TS K+++NV  VF+ L +
Sbjct: 125 SCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE 163

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  120 bits (301), Expect = 6e-28,   Method: Compositional matrix adjust.
 Identities = 62/163 (38%), Positives = 98/163 (60%), Gaps = 5/163 (3%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK+++IG+S+VGKT   +R+    F     +T+G+DF+ + V    +R+K+Q+WDTAGQ
Sbjct: 20  IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 79
Query: 81  ERYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN-AQVILVGNKCDM 138
           ER+R ++   YYR     + +YD+TN  SF S+  WI + K +   N    ILVGNKCD+
Sbjct: 80  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 139
Query: 139 EDERVISFERGKHLAESLGVEFFETSAK---DNVNVKGVFERL 178
                +  +  +  A++  +  FETSAK   DN +V+ +F  L
Sbjct: 140 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 182

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  119 bits (298), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 99/163 (60%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNKC 136
           ER++++  A+YRGA   +L++DVT   +F ++  W    + Q      +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+E+ +V +            + +FETSAK+ +NV+  F+ + 
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/162 (35%), Positives = 99/162 (61%), Gaps = 4/162 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNKC 136
           ER++++  A+YRGA   +L++DVT   +F ++  W    + Q      +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           D+E+ +V +            + +FETSAK+ +NV+  F+ +
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 98/163 (60%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIWDTAGQ
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNKC 136
           ER++++  A+YRGA   +L++DVT   +F ++  W    + Q      +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D E+ +V +            + +FETSAK+ +NV+  F+ + 
Sbjct: 128 DFENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 60/157 (38%), Positives = 92/157 (58%), Gaps = 3/157 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL+++G ++VGK+S + R+  + F      T+G  F  + V  ++  VK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED- 140
           R+ ++   YYR A   +++YDVT  +SF   + W+ ++   +  +  + LVGNK D    
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123
Query: 141 --ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
             ER ++ E G+ LAE  G+ FFETSAK   NV  VF
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  116 bits (291), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 56/163 (34%), Positives = 98/163 (60%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIWDTAG 
Sbjct: 8   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGL 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW----ITQIKTYSWDNAQVILVGNKC 136
           ER++++  A+YRGA   +L++DVT   +F ++  W    + Q      +N   +++GNK 
Sbjct: 68  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+E+ +V +            + +FETSAK+ +NV+  F+ + 
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIA 170

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  108 bits (269), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 97/163 (59%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK++++G+  VGK+S + RY  + F S    T+G++F  K +      V +QIWDTAGQ
Sbjct: 11  LFKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 70
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKC 136
           ER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y+     ++   +++GNK 
Sbjct: 71  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKT 130
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+++ +V + E      ++    +FETSAKD+ NV   FE  V
Sbjct: 131 DIKERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAV 173

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 56/163 (34%), Positives = 95/163 (58%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK+S + RY  + F S    T+G++F  + +    + V LQIWDTAGQ
Sbjct: 7   LLKVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKC 136
           ER++++ T +YRGA   +L + V + +SF ++ +W  +   Y+     ++   +++GNK 
Sbjct: 67  ERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKV 126
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D ED +V + E      E+    + ETSAKD+ NV   FE  V
Sbjct: 127 DKEDRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAV 169

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 64/176 (36%), Positives = 97/176 (55%), Gaps = 3/176 (1%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I 
Sbjct: 9   QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDIL 67
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGN 134
           DTAGQE Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGN
Sbjct: 68  DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGN 127
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           K D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM +S
Sbjct: 128 KSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDS 183

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 95/163 (58%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK++++G+  VGK+S + RY  + F +    T+G++F  K +      V +QIWDTAGQ
Sbjct: 7   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKC 136
           ER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y+     ++   +++GNK 
Sbjct: 67  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 126
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+ + +V + E      ++    +FETSAKD  NV   FE  V
Sbjct: 127 DISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV 169

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 54/163 (33%), Positives = 95/163 (58%), Gaps = 4/163 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK++++G+  VGK+S + RY  + F +    T+G++F  K +      V +QIWDTAGQ
Sbjct: 9   LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQ 68
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKC 136
           ER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y+     ++   +++GNK 
Sbjct: 69  ERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKI 128
Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           D+ + +V + E      ++    +FETSAKD  NV   FE  V
Sbjct: 129 DISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAV 171

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 64/176 (36%), Positives = 97/176 (55%), Gaps = 3/176 (1%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I 
Sbjct: 13  QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDIL 71
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGN 134
           DTAGQE Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGN
Sbjct: 72  DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGN 131
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           K D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM +S
Sbjct: 132 KSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDS 187

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 64/176 (36%), Positives = 97/176 (55%), Gaps = 3/176 (1%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I 
Sbjct: 1   QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDIL 59
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGN 134
           DTAGQE Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGN
Sbjct: 60  DTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGN 119
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           K D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM +S
Sbjct: 120 KSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDS 175

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score =  102 bits (254), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 56/160 (35%), Positives = 92/160 (57%), Gaps = 3/160 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    D+  +ILVGNKCD+ED
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 122
Query: 141 ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV
Sbjct: 123 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLV 162

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 56/160 (35%), Positives = 92/160 (57%), Gaps = 3/160 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 6   YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    D+  +ILVGNKCD+ED
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLED 124
Query: 141 ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV
Sbjct: 125 ERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLV 164

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score =  101 bits (252), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 63/176 (35%), Positives = 96/176 (54%), Gaps = 3/176 (1%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I 
Sbjct: 1   QNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDIL 59
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGN 134
           DTAG E Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGN
Sbjct: 60  DTAGLEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGN 119
Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           K D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM +S
Sbjct: 120 KSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDS 175

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 92/160 (57%), Gaps = 3/160 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 141 ERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVFERLV 179
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLV 162

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 55/160 (34%), Positives = 92/160 (57%), Gaps = 3/160 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122
Query: 141 ERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVFERLV 179
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLV 162

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score =  100 bits (249), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 59/172 (34%), Positives = 96/172 (55%), Gaps = 4/172 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I DTAG 
Sbjct: 7   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDILDTAGL 65
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDM 138
           E Y  I   Y+R   GF+L++ +T  ESFT+  ++  QI       D   +++VGNK D+
Sbjct: 66  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 125
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           E+ R +  E  +  AE  GV++ ETSAK   NV  VF  L+ +I   KMSE+
Sbjct: 126 EERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTKKMSEN 177

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score =  100 bits (248), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 59/172 (34%), Positives = 96/172 (55%), Gaps = 4/172 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I DTAG 
Sbjct: 3   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDILDTAGL 61
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW--DNAQVILVGNKCDM 138
           E Y  I   Y+R   GF+L++ +T  ESFT+  ++  QI       D   +++VGNK D+
Sbjct: 62  EDYAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDL 121
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSES 189
           E+ R +  E  +  AE  GV++ ETSAK   NV  VF  L+ +I   KMSE+
Sbjct: 122 EERRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREIRTKKMSEN 173

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score =  100 bits (248), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 56/156 (35%), Positives = 87/156 (55%), Gaps = 2/156 (1%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK++   ++  D F   +  T    ++ K V   ++ V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEE-VQIDILDTAGQ 62
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGNKCDME 139
           E Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGNK D+E
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122
Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           D+R +S E  K+ A+   V + ETSAK   NV  VF
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVF 158

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 64/206 (31%), Positives = 104/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE+Y  +   YY  A   I+M+DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAMP 180

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 97.4 bits (241), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 63/206 (30%), Positives = 104/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAMP 180

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 60/194 (30%), Positives = 100/194 (51%), Gaps = 21/194 (10%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           AA       FKL+++G+   GKT+F+ R+    F   +V+T+G++        +   +K 
Sbjct: 7   AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKF 66
Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
            +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L 
Sbjct: 67  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 125
Query: 133 GNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           GNK D++D +V    I F R K+L      ++++ SAK N N +  F  L        + 
Sbjct: 126 GNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL--------AR 171
Query: 189 SLDSDPNL--VAGP 200
            L  DPNL  VA P
Sbjct: 172 KLIGDPNLEFVAMP 185

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 63/206 (30%), Positives = 104/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAMP 180

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 63/206 (30%), Positives = 104/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAMP 180

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 96.7 bits (239), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 61/187 (32%), Positives = 101/187 (54%), Gaps = 25/187 (13%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--VKLQIWDTAG 79
           FKL+++G+   GKT+F+ R+    F   +V+T+G++  V  +  H  R  +K  +WDTAG
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLVFHTNRGPIKFNVWDTAG 61
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D++
Sbjct: 62  QEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIK 120
Query: 140 DERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPN 195
           D +V    I F R K+L      ++++ SAK N N +  F  L        +  L  DPN
Sbjct: 121 DRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL--------ARKLIGDPN 166
Query: 196 L--VAGP 200
           L  VA P
Sbjct: 167 LEFVAMP 173

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 60/190 (31%), Positives = 100/190 (52%), Gaps = 23/190 (12%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--V 70
           AA       FKL+++G+   GKT+F+ R+    F   +V+T+G++  V  +  H  R  +
Sbjct: 2   AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLVFHTNRGPI 59
Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI 130
           K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++
Sbjct: 60  KFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIV 118
Query: 131 LVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           L GNK D++D +V    I F R K+L      ++++ SAK N N +  F  L        
Sbjct: 119 LCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL-------- 164
Query: 187 SESLDSDPNL 196
           +  L  DPNL
Sbjct: 165 ARKLIGDPNL 174

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 63/206 (30%), Positives = 103/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAMP 180

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 60/190 (31%), Positives = 99/190 (52%), Gaps = 23/190 (12%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--V 70
           AA       FKL+++G+   GKT+F+ R+    F   +V T+G++  V  +  H  R  +
Sbjct: 2   AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVE--VHPLVFHTNRGPI 59
Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI 130
           K  +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++
Sbjct: 60  KFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIV 118
Query: 131 LVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           L GNK D++D +V    I F R K+L      ++++ SAK N N +  F  L        
Sbjct: 119 LCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL-------- 164
Query: 187 SESLDSDPNL 196
           +  L  DPNL
Sbjct: 165 ARKLIGDPNL 174

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 62/206 (30%), Positives = 103/206 (50%), Gaps = 32/206 (15%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++   
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHP 49
Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
                +   +K  +WDTAGQE++  +   YY  A   I+ +DVT+  ++ ++ +W   + 
Sbjct: 50  LVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDL- 108
Query: 121 TYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
               +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  F 
Sbjct: 109 VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFL 162
Query: 177 RLVDIICDKMSESLDSDPNL--VAGP 200
            L        +  L  DPNL  VA P
Sbjct: 163 WL--------ARKLIGDPNLEFVAXP 180

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 94.4 bits (233), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 62/196 (31%), Positives = 102/196 (52%), Gaps = 25/196 (12%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--V 70
           AA       FKL+++G+   GKT+F+ R+    F   +V+T+G++  V  +  H  R  +
Sbjct: 4   AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLVFHTNRGPI 61
Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI 130
           K  +WDTAG E++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++
Sbjct: 62  KFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIV 120
Query: 131 LVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           L GNK D++D +V    I F R K+L      ++++ SAK N N +  F  L        
Sbjct: 121 LCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL-------- 166
Query: 187 SESLDSDPNL--VAGP 200
           +  L  DPNL  VA P
Sbjct: 167 ARKLIGDPNLEFVAMP 182

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 94.0 bits (232), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 65/208 (31%), Positives = 106/208 (50%), Gaps = 36/208 (17%)
Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           MA  GE + Q           FKL+++G+   GKT+F+ R+    F   +V+T+G++  V
Sbjct: 1   MAAQGEPQVQ-----------FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--V 47
Query: 61  KTVFRHDKR--VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ 118
             +  H  R  +K  +WDTAG E++  +   YY  A   I+M+DVT+  ++ ++ +W   
Sbjct: 48  HPLVFHTNRGPIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRD 107
Query: 119 IKTYSWDNAQVILVGNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGV 174
           +     +N  ++L GNK D++D +V    I F R K+L      ++++ SAK N N +  
Sbjct: 108 L-VRVCENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKP 160
Query: 175 FERLVDIICDKMSESLDSDPNL--VAGP 200
           F  L        +  L  DPNL  VA P
Sbjct: 161 FLWL--------ARKLIGDPNLEFVAMP 180

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 93.6 bits (231), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 59/194 (30%), Positives = 99/194 (51%), Gaps = 21/194 (10%)
Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           AA       FKL+++G+   GKT+F+ R+        +V+T+G++        +   +K 
Sbjct: 7   AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKF 66
Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
            +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L 
Sbjct: 67  NVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLC 125
Query: 133 GNKCDMEDERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           GNK D++D +V    I F R K+L      ++++ SAK N N +  F  L        + 
Sbjct: 126 GNKVDIKDRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL--------AR 171
Query: 189 SLDSDPNL--VAGP 200
            L  DPNL  VA P
Sbjct: 172 KLIGDPNLEFVAMP 185

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 93.6 bits (231), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 60/187 (32%), Positives = 100/187 (53%), Gaps = 25/187 (13%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR--VKLQIWDTAG 79
           FKL+++G+   GKT+F+ R+    F   +V+T+G++  V  +  H  R  +K  +WDTAG
Sbjct: 7   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVE--VHPLVFHTNRGPIKFNVWDTAG 64
Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
            E++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D++
Sbjct: 65  LEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIK 123
Query: 140 DERV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPN 195
           D +V    I F R K+L      ++++ SAK N N +  F  L        +  L  DPN
Sbjct: 124 DRKVKAKSIVFHRKKNL------QYYDISAKSNYNFEKPFLWL--------ARKLIGDPN 169
Query: 196 L--VAGP 200
           L  VA P
Sbjct: 170 LEFVAMP 176

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 93.6 bits (231), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 58/164 (35%), Positives = 89/164 (54%), Gaps = 14/164 (8%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ I+G  SVGK+S   ++ +  F  ++  T+   F  K +  + +   LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-------DWITQIKTYSWDNAQVILVGNK 135
           Y      Y     G+IL+Y VT+ +SF  I+       D + +++        ++LVGNK
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQI------PIMLVGNK 120
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            D+  ERVIS+E GK LAES    F E+SAK+N     VF R++
Sbjct: 121 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 164

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 93.2 bits (230), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 55/174 (31%), Positives = 94/174 (54%), Gaps = 14/174 (8%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
             K + +G+ +VGKT  L  Y  ++F + +V TV  +F    V  +   V L +WDTAGQ
Sbjct: 8   FIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVV-NGATVNLGLWDTAGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDME 139
           E Y  +    YRGA  FIL + + ++ S+ ++ + WI ++K Y+     ++LVG K D+ 
Sbjct: 67  EDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLR 125
Query: 140 DER----------VISFERGKHLAESLGVE-FFETSAKDNVNVKGVFERLVDII 182
           D++           I+  +G+ L + +G   + E S+K   NVKGVF+  + ++
Sbjct: 126 DDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVV 179

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 52/191 (27%), Positives = 100/191 (52%), Gaps = 13/191 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+   GKT+F+ R+    F   +++T+G++    + + +   +K  +WDTAG E
Sbjct: 13  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           ++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D+++ 
Sbjct: 73  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDL-VRVCENIPIVLCGNKVDVKER 131
Query: 142 RV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV 197
           +V    I+F R K+L      ++++ SAK N N +  F  L   +         + P L 
Sbjct: 132 KVKAKTITFHRKKNL------QYYDISAKSNYNFEKPFLWLARKLAGNPQLEFVASPAL- 184
Query: 198 AGPKGTRLTEQ 208
             P   ++ EQ
Sbjct: 185 -APPEVQVDEQ 194

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 58/164 (35%), Positives = 89/164 (54%), Gaps = 14/164 (8%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ I+G  SVGK+S   ++ +  F  ++  T+   F  K +  + +   LQ+ DTAGQ+ 
Sbjct: 8   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 66
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-------DWITQIKTYSWDNAQVILVGNK 135
           Y      Y     G+IL+Y VT+ +SF  I+       D + +++        ++LVGNK
Sbjct: 67  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQI------PIMLVGNK 120
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            D+  ERVIS+E GK LAES    F E+SAK+N     VF R++
Sbjct: 121 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 164

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 53/162 (32%), Positives = 87/162 (53%), Gaps = 2/162 (1%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++I+G   VGKTS   ++ +  F+  +  TV   +  K V        L + DTAGQ+ 
Sbjct: 26  KVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEFHLHLVDTAGQDE 84
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDE 141
           Y  +  ++  G  G++L+Y VT+  SF  I+    ++ + +      V+LVGNK D+  E
Sbjct: 85  YSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPE 144
Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
           R +    GK LAES G  F E+SA++N   +G+F +++  I 
Sbjct: 145 REVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIA 186

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 58/164 (35%), Positives = 89/164 (54%), Gaps = 14/164 (8%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ I+G  SVGK+S   ++ +  F  ++  T+   F  K +  + +   LQ+ DTAGQ+ 
Sbjct: 3   KIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 61
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-------DWITQIKTYSWDNAQVILVGNK 135
           Y      Y     G+IL+Y VT+ +SF  I+       D + +++        ++LVGNK
Sbjct: 62  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQI------PIMLVGNK 115
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            D+  ERVIS+E GK LAES    F E+SAK+N     VF R++
Sbjct: 116 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 159

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 90.9 bits (224), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 58/164 (35%), Positives = 88/164 (53%), Gaps = 14/164 (8%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K+ I+G  SVGK+S   ++ +  F  +   T+   F  K +  + +   LQ+ DTAGQ+ 
Sbjct: 6   KIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDE 64
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQ-------DWITQIKTYSWDNAQVILVGNK 135
           Y      Y     G+IL+Y VT+ +SF  I+       D + +++        ++LVGNK
Sbjct: 65  YSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQI------PIMLVGNK 118
Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            D+  ERVIS+E GK LAES    F E+SAK+N     VF R++
Sbjct: 119 KDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 162

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 90.5 bits (223), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 90/158 (56%), Gaps = 11/158 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+   GKT+F+ R+    F   +++T+G++    + + +   +K  +WDTAG E
Sbjct: 6   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           ++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D+++ 
Sbjct: 66  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKER 124
Query: 142 RV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           +V    I+F R K+L      ++++ SAK N N +  F
Sbjct: 125 KVKAKTITFHRKKNL------QYYDISAKSNYNFEKPF 156

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 90.5 bits (223), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 46/158 (29%), Positives = 90/158 (56%), Gaps = 11/158 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+   GKT+F+ R+    F   +++T+G++    + + +   +K  +WDTAG E
Sbjct: 5   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           ++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L GNK D+++ 
Sbjct: 65  KFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKER 123
Query: 142 RV----ISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
           +V    I+F R K+L      ++++ SAK N N +  F
Sbjct: 124 KVKAKTITFHRKKNL------QYYDISAKSNYNFEKPF 155

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 90.1 bits (222), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 53/161 (32%), Positives = 87/161 (54%), Gaps = 4/161 (2%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQ 80
            K++++G+ + GKTS    +A ++F   +  T+G+DF ++ +    +  V LQIWD  GQ
Sbjct: 7   LKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ---VILVGNKCD 137
                +   Y  GA G +L+YD+TN +SF +++DW T +K  S ++     V LVGNK D
Sbjct: 67  TIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKID 126
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           +E  R I  E+     +  G      SAK   +V   F+++
Sbjct: 127 LEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKV 167

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 54/173 (31%), Positives = 93/173 (53%), Gaps = 14/173 (8%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K + +G+ +VGKT  L  Y  ++F + +V TV  +F    V   +  V L +WDTAGQE
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVVVDGNT-VNLGLWDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    YRGA  FIL + + ++ S+ ++ + WI +++ Y+     +ILVG K D+ D
Sbjct: 66  DYNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYA-PGVPIILVGTKLDLRD 124
Query: 141 ER----------VISFERGKHLAESLGVE-FFETSAKDNVNVKGVFERLVDII 182
           ++           I+  +G+ L + +G   + E S+K   NVK VF+  + ++
Sbjct: 125 DKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDAAIKVV 177

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 89.7 bits (221), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 60/196 (30%), Positives = 91/196 (46%), Gaps = 40/196 (20%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDF----------------------- 58
           +K +++G SSVGK+S + R   D+F     +T+G  F                       
Sbjct: 8   YKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNN 67
Query: 59  --------KVKTVFRHDK------RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT 104
                    V    +H+        +K  IWDTAGQERY +I   YYRGA   I+++D++
Sbjct: 68  INSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDIS 127
Query: 105 NEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETS 164
           N  +    + W+ Q+K  S  N  +ILV NK D    +V   E  K+ A+   + F +TS
Sbjct: 128 NSNTLDRAKTWVNQLKISS--NYIIILVANKIDKNKFQVDILEVQKY-AQDNNLLFIQTS 184
Query: 165 AKDNVNVKGVFERLVD 180
           AK   N+K +F  L +
Sbjct: 185 AKTGTNIKNIFYMLAE 200

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 92/172 (53%), Gaps = 14/172 (8%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K + +G+ +VGKT  L  Y  ++F + +V TV  +F    V      V L +WDTAGQE
Sbjct: 7   IKCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVVV-DGSTVNLGLWDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    YRGA  F+L + + ++ S+ +I + W+ ++K Y+     ++LVG K D+ D
Sbjct: 66  DYNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYA-PGIPIVLVGTKLDLRD 124
Query: 141 ER----------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDI 181
           ++           I+  +G+ L + +G V + E S+K   NVK VF+  + +
Sbjct: 125 DKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVFDTAIRV 176

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAG 122
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 123 -RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 51/171 (29%), Positives = 94/171 (54%), Gaps = 12/171 (7%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K + +G+ +VGKT  L  Y  + F + ++ TV  +F    V    + V L +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSA-NVAVDGQIVNLGLWDTAGQE 68
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    YRGA  F+L + + ++ S+ ++ + W+ +++ ++  N  ++LVG K D+ D
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRD 127
Query: 141 ER--------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
           ++        VI+  +G+ L + +G   + E S+K   NVK VF+  + ++
Sbjct: 128 DKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVV 178

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/176 (29%), Positives = 90/176 (51%), Gaps = 1/176 (0%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG-IDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +K+ +IG+  VGKT+++ R  D  F   + +TVG ++  V  +      +K  +WDTAGQ
Sbjct: 12  YKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQ 71
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           E+   +   YY GA G IL +DVT+  +  ++  W+ + +    + A +++  NK D+++
Sbjct: 72  EKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKN 131
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNL 196
            + IS +    + +    E+FE SAK   N    F  L  I   +      S+ NL
Sbjct: 132 RQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNL 187

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/176 (30%), Positives = 91/176 (51%), Gaps = 16/176 (9%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           M K +++G+ +VGKT  L  YA+D+F   +V TV  D    +V    K+  L ++DTAGQ
Sbjct: 18  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQ 76
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDME 139
           E Y  +    Y     F++ + V N  SF ++ ++W+ ++K Y+  N   +L+G + D+ 
Sbjct: 77  EDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLR 135
Query: 140 D------------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFERLVDII 182
           D            E+ I  E+G+ LA+ +G   + E SA     +K VF+  +  I
Sbjct: 136 DDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 191

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 88.6 bits (218), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 88.6 bits (218), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNKCD+  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 122
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++ + LA S G+ F ETSAK    V   F  LV
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 87.0 bits (214), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 52/173 (30%), Positives = 90/173 (52%), Gaps = 16/173 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+   GKTS L  +AD +F  ++  TV   + V    +  K V L IWDTAGQ+ 
Sbjct: 36  KVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNLQVK-GKPVHLHIWDTAGQDD 94
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +   +Y  A   +L +DVT+  SF +I   W  ++  +      +I+VG K D+  +
Sbjct: 95  YDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKD 153
Query: 142 R------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDI 181
           +             +++ RG+ +A S+G V + E SA+ + NV  VF+   ++
Sbjct: 154 KSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEV 206

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 83.6 bits (205), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNK D+  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++ + LA S G+ F ETSAK    V   F  LV
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 83.6 bits (205), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 53/162 (32%), Positives = 88/162 (54%), Gaps = 2/162 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L+++G   VGK++   ++    F + +  T+   +  + V   D+  +L I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVI-DDRAARLDILDTAGQE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+L++ VT+  SF  I  +  QI +    D   +IL+GNK D++ 
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH 124
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +R ++ E G+ LA  L V + E SAK  +NV   F  LV +I
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 83.6 bits (205), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 49/163 (30%), Positives = 83/163 (50%), Gaps = 5/163 (3%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV-KLQIWDTAGQ 80
           +++ + G   VGK+S + R+   +F  +++ TV   ++   V   DK +  LQI DT G 
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR--QVISCDKSICTLQITDTTGS 61
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD--NAQVILVGNKCDM 138
            ++  +          FIL+Y +T+ +S   ++    QI     D  +  ++LVGNKCD 
Sbjct: 62  HQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDE 121
Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI 181
              R +     + LA +    F ETSAK N NVK +F+ L+++
Sbjct: 122 SPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNL 164

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 82.8 bits (203), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 53/171 (30%), Positives = 91/171 (53%), Gaps = 6/171 (3%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +N     K++++G+ +VGKT  L  ++     +A+V TV  +F     +++++ + L +W
Sbjct: 18  ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFI-LHLW 76
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGN 134
           DTAGQE Y  +    Y  +   +L + V N  SF +I   W  +IK Y  D A+ +LVG 
Sbjct: 77  DTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLVGL 135
Query: 135 KCDMEDERV--ISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
           K D+  +    ++ + G  L + LG V + E S+   + +  VFE+ VD I
Sbjct: 136 KVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCI 186

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 81.6 bits (200), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 53/171 (30%), Positives = 91/171 (53%), Gaps = 6/171 (3%)
Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           +N     K++++G+ +VGKT  L  ++     +A+V TV  +F     +++++ + L +W
Sbjct: 17  ENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSHVMKYKNEEFI-LHLW 75
Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGN 134
           DTAGQE Y  +    Y  +   +L + V N  SF +I   W  +IK Y  D A+ +LVG 
Sbjct: 76  DTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHY-IDTAKTVLVGL 134
Query: 135 KCDMEDERV--ISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
           K D+  +    ++ + G  L + LG V + E S+   + +  VFE+ VD I
Sbjct: 135 KVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCI 185

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 80.1 bits (196), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 50/177 (28%), Positives = 89/177 (50%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 41/111 (36%), Positives = 60/111 (54%), Gaps = 1/111 (0%)
Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQ 128
            +L I DTAGQE +  +   Y R   GF+L++ + + +SF  +    TQI +    D+  
Sbjct: 57  ARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP 116
Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           V+LVGNK D+E +R +          S  V +FE SAK  +NV   FE+LV
Sbjct: 117 VVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLV 167

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 80.1 bits (196), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 50/177 (28%), Positives = 89/177 (50%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 79.3 bits (194), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 173

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 69
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 128
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 129 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 176

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 173

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 173

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 148
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 200

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 173

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 87/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F+  ++ TV  D     V    K V L +WDTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 73  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 131
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 132 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 183

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 125
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 126
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 23  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 81
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 82  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 140
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 141 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 192

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 124
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 126
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 126
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 127 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 68
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 127
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 125
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 126 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 53/196 (27%), Positives = 94/196 (47%), Gaps = 17/196 (8%)
Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 62
           GV   K   +  D+    + K +++G+ +VGKT  L  Y  ++F   ++ TV  D     
Sbjct: 137 GVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSAN 195
Query: 63  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKT 121
           V    K V L +WDTAG E Y  +    Y     F++ + + +  SF  ++  W  +++ 
Sbjct: 196 VMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR- 254
Query: 122 YSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAKDN 168
           +   N  +ILVG K D+ D++             I++ +G  +A+ +G V++ E SA   
Sbjct: 255 HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 314
Query: 169 VNVKGVF-ERLVDIIC 183
             +K VF E +  ++C
Sbjct: 315 RGLKTVFDEAIRAVLC 330

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   F  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEFDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 53/196 (27%), Positives = 94/196 (47%), Gaps = 17/196 (8%)
Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 62
           GV   K   +  D+    + K +++G+ +VGKT  L  Y  ++F   ++ TV  D     
Sbjct: 137 GVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSAN 195
Query: 63  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKT 121
           V    K V L +WDTAG E Y  +    Y     F++ + + +  SF  ++  W  +++ 
Sbjct: 196 VMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR- 254
Query: 122 YSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAKDN 168
           +   N  +ILVG K D+ D++             I++ +G  +A+ +G V++ E SA   
Sbjct: 255 HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 314
Query: 169 VNVKGVF-ERLVDIIC 183
             +K VF E +  ++C
Sbjct: 315 RGLKTVFDEAIRAVLC 330

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 77.8 bits (190), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 53/196 (27%), Positives = 94/196 (47%), Gaps = 17/196 (8%)
Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT 62
           GV   K   +  D+    + K +++G+ +VGKT  L  Y  ++F   ++ TV  D     
Sbjct: 137 GVMLIKKTAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSAN 195
Query: 63  VFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKT 121
           V    K V L +WDTAG E Y  +    Y     F++ + + +  SF  ++  W  +++ 
Sbjct: 196 VMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVR- 254
Query: 122 YSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAKDN 168
           +   N  +ILVG K D+ D++             I++ +G  +A+ +G V++ E SA   
Sbjct: 255 HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 314
Query: 169 VNVKGVF-ERLVDIIC 183
             +K VF E +  ++C
Sbjct: 315 RGLKTVFDEAIRAVLC 330

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 53/152 (34%), Positives = 82/152 (53%), Gaps = 19/152 (12%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-----DKRVKLQIWDT 77
           KL I G + VGK++ + R+    F   +      D  +++ +RH     D+ V ++I DT
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEY------DPTLESTYRHQATIDDEVVSMEILDT 83
Query: 78  AGQERYRTIT-TAYYRGAMGFILMYDVTNEESFTSI---QDWITQIKTYSWDNAQVILVG 133
           AGQE   TI    + R   GF+L+YD+T+  SF  +   ++ + +IK     N  +ILVG
Sbjct: 84  AGQED--TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPK--NVTLILVG 139
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSA 165
           NK D++  R +S E G+ LA  L   F+E SA
Sbjct: 140 NKADLDHSRQVSTEEGEKLATELACAFYECSA 171

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y      ++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 123
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 124 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 180

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 9   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 67
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 126
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 127 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 165

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 77.4 bits (189), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 9   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 67
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 126
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 127 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 165

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y      ++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 53/159 (33%), Positives = 83/159 (52%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 80
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP- 139
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++   LA+S G+ F ETSAK    V+  F  LV
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLV 178

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y      ++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 122 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 178

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 124
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 122
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGK   L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 69
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 128
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 129 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 180

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 77.0 bits (188), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y      ++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 67  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 125
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  +A+ +G V++ E SA     +K VF E +  ++C
Sbjct: 126 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC 182

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++    ++ TV  D     V    K V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNALPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 89
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 148
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 200

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 124
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 122
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 123 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 77.0 bits (188), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVEKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 124
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 125 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEESYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDEYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 11  YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 69
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 70  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 128
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 129 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 167

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 53/149 (35%), Positives = 80/149 (53%), Gaps = 6/149 (4%)
Query: 34  KTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG 93
           K++   ++   +F   +  T+  DF  K +        L+I DTAG E++ ++   Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 94  AMGFILMYDVTNEESFTSIQ---DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK 150
             GFIL+Y + N++SF  I+   D I ++K Y  +   VILVGNK D+E ER +S   G+
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRY--EKVPVILVGNKVDLESEREVSSSEGR 132
Query: 151 HLAESLGVEFFETSAKDNVNVKGVFERLV 179
            LAE  G  F ETSAK    V  +F  +V
Sbjct: 133 ALAEEWGCPFMETSAKSKTMVDELFAEIV 161

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAG E
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 66  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 124
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 125 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 176

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK +   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKNALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  ++   ++ K V    +   L I DTAGQE
Sbjct: 10  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQE 68
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 69  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 127
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 128 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 166

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 48/179 (26%), Positives = 89/179 (49%), Gaps = 17/179 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  S+ +++  W  +++ +   +  +ILVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVR-HHCPSTPIILVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESL-GVEFFETSAKDNVNVKGVF-ERLVDIICDK 185
           ++             I++ +G  LA+ +  V++ E SA     +K VF E +  ++C +
Sbjct: 122 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLCPQ 180

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGEICLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 47/172 (27%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAG E
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLE 89
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRD 148
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A+ +G V++ E SA     +K VF+  +
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 200

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ +  +    K+V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDM-ED 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ +D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQD 144
Query: 141 ERV-----------ISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
           E             +  E G+ +A  +    + E SAK    V+ VFE
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F + +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQFPAVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y       Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ ++
Sbjct: 66  YDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 124
Query: 142 RVISFE------------RGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
              + E             G+ +A  +G   + E SAK    V+ VFE
Sbjct: 125 EHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGN+CD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   +  ++LVG K D+ D
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRD 122
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A  +G V++ E SA     +K VF+  +
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAI 174

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   +  ++LVG K D+ D
Sbjct: 64  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRD 122
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A  +G V++ E SA     +K VF+  +
Sbjct: 123 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAI 174

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  ++   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   +  ++LVG K D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR-HHCPHTPILLVGTKLDLRD 121
Query: 141 ER------------VISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  +A  +G V++ E SA     +K VF+  +
Sbjct: 122 DKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAI 173

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 85/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L  ++ D F   +V TV  ++ +  +    K+V+L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDM-ED 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ +D
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFX-PNVPIILVGNKKDLRQD 144
Query: 141 ERV-----------ISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
           E             +  E G+ +A  +    + E SAK    V+ VFE
Sbjct: 145 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DT GQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTGGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG+E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGKE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DT GQE
Sbjct: 4   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTTGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 48/177 (27%), Positives = 88/177 (49%), Gaps = 17/177 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 10  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQE 68
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  S+ +++  W  +++ +   +  +ILVG K D+ D
Sbjct: 69  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVR-HHCPSTPIILVGTKLDLRD 127
Query: 141 ER------------VISFERGKHLAESL-GVEFFETSAKDNVNVKGVF-ERLVDIIC 183
           ++             I++ +G  LA+ +  V++ E SA     +K VF E +  ++C
Sbjct: 128 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVLC 184

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           Y  +    Y      ++ + V + +S  +I + W+ ++K +   N  +ILV NK D+  +
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSD 144
Query: 142 RVISFERGKHLAESL-------------GVEFFETSAKDNVNVKGVFE 176
             +  E  +   E +               ++ E SAK    V+ VFE
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFE 192

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 48/168 (28%), Positives = 86/168 (51%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   +   F   +V TV  ++ V  V    +RV+L +WDTAGQE 
Sbjct: 12  KLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENY-VADVEVDGRRVELALWDTAGQED 70
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDM--- 138
           Y  +    Y  +   ++ + +   +S  ++Q+ WI ++  +      +ILVG K D+   
Sbjct: 71  YDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFC-QGVPIILVGCKVDLRND 129
Query: 139 ---------EDERVISFERGKHLAESLGVE-FFETSAKDNVNVKGVFE 176
                    E ++ ++ + G+ +A+ +G   ++E SAK    V+ VFE
Sbjct: 130 PQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVREVFE 177

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/168 (29%), Positives = 84/168 (50%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ +  +    K+V+L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 65
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDM-ED 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ +D
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQD 124
Query: 141 ERV-----------ISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
           E             +  E G+ +A  +    + E SAK    V+ VFE
Sbjct: 125 EHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 172

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 82/159 (51%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ + V   +  + L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETXL-LDILDTAGGE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 49/168 (29%), Positives = 83/168 (49%), Gaps = 16/168 (9%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+I+G+ + GKT  L   + D F   +V TV  ++ V  +    K+V+L +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLED 68
Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D+ + 
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRND 127
Query: 141 -----------ERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFE 176
                      +  +  E G+ +A  +G   + E SAK    V+ VFE
Sbjct: 128 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 51/196 (26%), Positives = 91/196 (46%), Gaps = 36/196 (18%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64
Query: 82  RYRTITTAYYRGAMG-------------------FILMYDVTNEESFTSIQ-DWITQIKT 121
            Y  +    Y   +G                   F++ + + +  SF +++  W  +++ 
Sbjct: 65  DYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVR- 123
Query: 122 YSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLG-VEFFETSAKDN 168
           +   N  +ILVG K D+ D++             I++ +G  +A+ +G V++ E SA   
Sbjct: 124 HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQ 183
Query: 169 VNVKGVF-ERLVDIIC 183
             +K VF E +  ++C
Sbjct: 184 RGLKTVFDEAIRAVLC 199

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 9   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLE 67
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 68  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 126
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 127 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 165

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 46/172 (26%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 11  IKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDSKPVNLGLWDTAGQE 69
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  S+ +++  W  +++ +   +  +ILVG K D+ D
Sbjct: 70  DYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVR-HHCPSTPIILVGTKLDLRD 128
Query: 141 ER------------VISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
           ++             I++ +G  LA+ +  V++ E SA     +K VF+  +
Sbjct: 129 DKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAI 180

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 49/185 (26%), Positives = 93/185 (50%), Gaps = 18/185 (9%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A Q      KL+++G+   GKT+ L   A D +   +V TV  ++    +   ++RV+L 
Sbjct: 3   APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 61
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILV 132
           +WDT+G   Y  +    Y  +   +L +D++  E+  ++++ W T+I  Y   + +V+L+
Sbjct: 62  LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLI 120
Query: 133 GNKCDM------------EDERVISFERGKHLAESLGVE-FFETSA-KDNVNVKGVFERL 178
           G K D+            + +  IS+E+G  +A+ LG E + E SA     ++  +F R 
Sbjct: 121 GCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF-RT 179
Query: 179 VDIIC 183
             ++C
Sbjct: 180 ASMLC 184

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 49/185 (26%), Positives = 93/185 (50%), Gaps = 18/185 (9%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A Q      KL+++G+   GKT+ L   A D +   +V TV  ++    +   ++RV+L 
Sbjct: 4   APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 62
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILV 132
           +WDT+G   Y  +    Y  +   +L +D++  E+  ++++ W T+I  Y   + +V+L+
Sbjct: 63  LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLI 121
Query: 133 GNKCDM------------EDERVISFERGKHLAESLGVE-FFETSA-KDNVNVKGVFERL 178
           G K D+            + +  IS+E+G  +A+ LG E + E SA     ++  +F R 
Sbjct: 122 GCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF-RT 180
Query: 179 VDIIC 183
             ++C
Sbjct: 181 ASMLC 185

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHE 80
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNKCD+  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 139
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++ + LA S G+ F ETSAK    V   F  LV
Sbjct: 140 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 178

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 73.9 bits (180), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 49/185 (26%), Positives = 93/185 (50%), Gaps = 18/185 (9%)
Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A Q      KL+++G+   GKT+ L   A D +   +V TV  ++    +   ++RV+L 
Sbjct: 20  APQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELS 78
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILV 132
           +WDT+G   Y  +    Y  +   +L +D++  E+  ++++ W T+I  Y   + +V+L+
Sbjct: 79  LWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLI 137
Query: 133 GNKCDM------------EDERVISFERGKHLAESLGVE-FFETSA-KDNVNVKGVFERL 178
           G K D+            + +  IS+E+G  +A+ LG E + E SA     ++  +F R 
Sbjct: 138 GCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF-RT 196
Query: 179 VDIIC 183
             ++C
Sbjct: 197 ASMLC 201

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGGE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 86/172 (50%), Gaps = 18/172 (10%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR-VKLQIWDTAGQE 81
           K +++G+ +VGKTS +  Y  + + + ++ T   +F    V   D R V+LQ+ DTAGQ+
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFS--AVVSVDGRPVRLQLCDTAGQD 79
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            +  +    Y     F+L + V +  SF ++ + W+ +I+ +    A +ILVG + D+ +
Sbjct: 80  EFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCH-CPKAPIILVGTQSDLRE 138
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       E+ +  E  K LAE +    + E SA    N+K VF+  +
Sbjct: 139 DVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAI 190

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
               +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EASAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGVE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAG E
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGIE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 123
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 124 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 175

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 57/190 (30%), Positives = 93/190 (48%), Gaps = 18/190 (9%)
Query: 34  KTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV-KLQIWDTAGQERYRTITTAYYR 92
           K+S + R+   +F   ++ T+   ++   V   DK V  LQI DT G  ++  +      
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTIEDTYR--QVISCDKSVCTLQITDTTGSHQFPAMQRLSIS 78
Query: 93  GAMGFILMYDVTNEESFTS---IQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG 149
               FIL++ VT+++S      I   I QIK  S ++  V+LVGNKCD E +R +     
Sbjct: 79  KGHAFILVFSVTSKQSLEELGPIYKLIVQIKG-SVEDIPVMLVGNKCD-ETQREVDTREA 136
Query: 150 KHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGPKGTRLTEQP 209
           + +A+     F ETSAK N NVK +F+ L+         +L++  N+     G R  +Q 
Sbjct: 137 QAVAQEWKCAFMETSAKMNYNVKELFQELL---------TLETRRNMSLNIDGKRSGKQ- 186
Query: 210 QRNNPINPNC 219
           +R + +   C
Sbjct: 187 KRTDRVKGKC 196

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 14  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 73  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 131
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 132 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 183

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 124
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 125 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 176

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 5   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 64  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 122
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 123 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 174

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 7   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 65
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 66  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 124
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 125 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 176

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 128
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 180

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 72.8 bits (177), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/182 (25%), Positives = 93/182 (51%), Gaps = 19/182 (10%)
Query: 11  KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KR 69
           K   D N +   K++++G+S  GKT+ L  +A D F   +V TV  ++     F  D +R
Sbjct: 13  KSIMDPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS--FEIDTQR 70
Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQ 128
           ++L +WDT+G   Y  +    Y  +   ++ +D++  E+  S+ + W  +I+ +   N +
Sbjct: 71  IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTK 129
Query: 129 VILVGNKCDM------------EDERVISFERGKHLAESLGVE-FFETSAKDNVN-VKGV 174
           ++LVG K D+              +  +S+++G ++A+ +G   + E SA  + N V+ +
Sbjct: 130 MLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDI 189
Query: 175 FE 176
           F 
Sbjct: 190 FH 191

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 125
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 126 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 177

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAI 173

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 64
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 65  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 123
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 124 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 175

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 85/172 (49%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAI 173

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 72.0 bits (175), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 92/178 (51%), Gaps = 19/178 (10%)
Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQ 73
           D N +   K++++G+S  GKT+ L  +A D F   +V TV  ++     F  D +R++L 
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS--FEIDTQRIELS 79
Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILV 132
           +WDT+G   Y  +    Y  +   ++ +D++  E+  S+ + W  +I+ +   N +++LV
Sbjct: 80  LWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLV 138
Query: 133 GNKCDM------------EDERVISFERGKHLAESLGVE-FFETSAKDNVN-VKGVFE 176
           G K D+              +  +S+++G ++A+ +G   + E SA  + N V+ +F 
Sbjct: 139 GCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH 196

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 5   YKLVVVGAVGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNK D+  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++ + LA S G+ F ETSAK    V   F  LV
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 51/159 (32%), Positives = 81/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 5   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNK D+  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP- 122
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +  ++ + LA S G+ F ETSAK    V   F  LV
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLV 161

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/109 (37%), Positives = 58/109 (53%), Gaps = 2/109 (1%)
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVI 130
           L I DTAGQE Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++
Sbjct: 53  LDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMV 112
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           LVGNK D+   R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 113 LVGNKSDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGK   L  Y  + F S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 11  IKCVVVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 69
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 70  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 128
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 129 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 180

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 49/172 (28%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L + DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V  V  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  +   S +V TV  ++ V TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAG E
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 121
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 122 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 173

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 70.1 bits (170), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 84/172 (48%), Gaps = 16/172 (9%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  ++ V TV    +   L ++DTAG E
Sbjct: 8   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLE 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + V +  SF ++++ W+ +I T+       +LVG + D+ D
Sbjct: 67  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-THHCPKTPFLLVGTQIDLRD 125
Query: 141 ------------ERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLV 179
                       ++ I+ E  + LA  L  V++ E SA     +K VF+  +
Sbjct: 126 DPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAI 177

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 89/170 (52%), Gaps = 19/170 (11%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQE 81
           K++++G+S  GKT+ L  +A D F   +V TV  ++     F  D +R++L +WDT+G  
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTAS--FEIDTQRIELSLWDTSGSP 66
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDM-- 138
            Y  +    Y  +   ++ +D++  E+  S+ + W  +I+ +   N +++LVG K D+  
Sbjct: 67  YYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT 125
Query: 139 ----------EDERVISFERGKHLAESLGVE-FFETSAKDNVN-VKGVFE 176
                       +  +S+++G ++A+ +G   + E SA  + N V+ +F 
Sbjct: 126 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH 175

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 80/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNK D+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 80/159 (50%), Gaps = 3/159 (1%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTA QE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQE 62
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNK D+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDLA- 121
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
            R +   + + LA S G+ + ETSAK    V+  F  LV
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV 160

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 63/113 (55%), Gaps = 2/113 (1%)
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVI 130
           L + DTAGQE +  +   Y R   GF+++Y VT++ SF  +  +   I +    ++  +I
Sbjct: 68  LDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI 127
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD-NVNVKGVFERLVDII 182
           LV NK D+   R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 128 LVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/115 (34%), Positives = 64/115 (55%), Gaps = 6/115 (5%)
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSI---QDWITQIKTYSWDNAQ 128
           L + DTAGQE +  +   Y R   GF+++Y VT++ SF  +      I ++K    ++  
Sbjct: 63  LDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVK--DRESFP 120
Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD-NVNVKGVFERLVDII 182
           +ILV NK D+   R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 121 MILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 175

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 63/113 (55%), Gaps = 2/113 (1%)
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVI 130
           L + DTAGQE +  +   Y R   GF+++Y VT++ SF  +  +   I +    ++  +I
Sbjct: 68  LDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI 127
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD-NVNVKGVFERLVDII 182
           LV NK D+   R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 128 LVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 63/113 (55%), Gaps = 2/113 (1%)
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVI 130
           L + DTAGQE +  +   Y R   GF+++Y VT++ SF  +  +   I +    ++  +I
Sbjct: 68  LDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMI 127
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD-NVNVKGVFERLVDII 182
           LV NK D+   R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 128 LVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 67.0 bits (162), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 49/171 (28%), Positives = 82/171 (47%), Gaps = 12/171 (7%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL---QIW 75
           D +FK++++G S VGK++    +      SA       D   + +    + V L    IW
Sbjct: 21  DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIW 80
Query: 76  ---DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVIL 131
              D  G  R   + T        F++++ VT+  SF+ + + + +++      +  VIL
Sbjct: 81  EQGDAGGWLRDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 135
Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           VGNK D+   R +S E G+HLA +L  +  ETSA  + N + +FE  V  I
Sbjct: 136 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 42/151 (27%), Positives = 79/151 (52%), Gaps = 8/151 (5%)
Query: 23  KLLIIGNSSVGKTSF--LFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW--DTA 78
           K+ ++G ++VGK++   +F      F   +  T G++  V  V   D  V ++++  DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN---AQVILVGNK 135
           G + Y+   + Y+ G    IL++DV++ ESF S + W   +K+   D     + +LV NK
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANK 141
Query: 136 CDMEDER-VISFERGKHLAESLGVEFFETSA 165
            D+  +R  +  +  +  A +  ++FF+ SA
Sbjct: 142 TDLPPQRHQVRLDMAQDWATTNTLDFFDVSA 172

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 46/168 (27%), Positives = 81/168 (48%), Gaps = 12/168 (7%)
Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL---QIW 75
           D +FK++++G S VGK++    +      +A       D   + +    + V L    IW
Sbjct: 10  DGVFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVYDIW 69
Query: 76  ---DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVIL 131
              D  G  +   + T        F++++ VT+  SF+ + + + +++      +  VIL
Sbjct: 70  EQGDAGGWLQDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVIL 124
Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           VGNK D+   R +S E G+HLA +L  +  ETSA  + N + +FE  V
Sbjct: 125 VGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAV 172

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 78/163 (47%), Gaps = 12/163 (7%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL---QIW-- 75
           +FK++++G S VGK++    +       A       D   + +    + V L    IW  
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61
Query: 76  -DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVG 133
            D  G  +   + T        F++++ VT+  SF+ + + + +++      +  VILVG
Sbjct: 62  GDAGGWLQDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVG 116
Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           NK D+   R +S E G+HLA +L  +  ETSA  + N + +FE
Sbjct: 117 NKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFE 159

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 43/159 (27%), Positives = 77/159 (48%), Gaps = 4/159 (2%)
Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +++++++G+  VGKTS    +A           +G D   +T+    +   L + DT   
Sbjct: 4   LYRVVLLGDPGVGKTSLASLFAGKQ-ERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEA 62
Query: 81  ERYRTI--TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCD 137
           E+        +  +G   ++++Y + +  SF S  +   Q++ T+  D+  +ILVGNK D
Sbjct: 63  EKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKAD 122
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
           +   R +S E G+  A     +F ETSA    NV  +FE
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE 161

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 41/162 (25%), Positives = 80/162 (49%), Gaps = 7/162 (4%)
Query: 21  MFKLLIIGNSSVGKTSF--LFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           ++K+L++G   VGK++   +F   +D   +      G  +  +++    +   L ++D  
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEA---EAAGHTYD-RSIVVDGEEASLMVYDIW 62
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCD 137
            Q+  R +          ++++Y VT++ SF    +   Q++     D+  +ILVGNK D
Sbjct: 63  EQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSD 122
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +   R +S + G+  A     +F ETSA  + NV+ +FE +V
Sbjct: 123 LVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV 164

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 57.4 bits (137), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 41/162 (25%), Positives = 80/162 (49%), Gaps = 7/162 (4%)
Query: 21  MFKLLIIGNSSVGKTSF--LFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           ++K+L++G   VGK++   +F   +D   +      G  +  +++    +   L ++D  
Sbjct: 7   VYKVLLLGAPGVGKSALARIFGGVEDGPEA---EAAGHTYD-RSIVVDGEEASLMVYDIW 62
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCD 137
            Q+  R +          ++++Y VT++ SF    +   Q++     D+  +ILVGNK D
Sbjct: 63  EQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSD 122
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +   R +S + G+  A     +F ETSA  + NV+ +FE +V
Sbjct: 123 LVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV 164

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 41/162 (25%), Positives = 80/162 (49%), Gaps = 7/162 (4%)
Query: 21  MFKLLIIGNSSVGKTSF--LFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           ++K+L++G   VGK++   +F   +D   +      G  +  +++    +   L ++D  
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGPEA---EAAGHTYD-RSIVVDGEEASLMVYDIW 57
Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCD 137
            Q+  R +          ++++Y VT++ SF    +   Q++     D+  +ILVGNK D
Sbjct: 58  EQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSD 117
Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           +   R +S + G+  A     +F ETSA  + NV+ +FE +V
Sbjct: 118 LVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV 159

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 19/169 (11%)
Query: 22  FKLLIIGNSSVGKTSF--LFRYADDSFTS--------AFVSTVGIDFKVKTVFRHDKRVK 71
           +++++IG   VGK++   +F    DS  S         +  T+ +D +  T+      + 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATI------IL 60
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVI 130
           L +W+  G+  +  +     +    ++++Y +T+  SF    +   Q++     ++  +I
Sbjct: 61  LDMWENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 118
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           LVGNK D+   R +S   G+  A     +F ETSA    NVK +FE +V
Sbjct: 119 LVGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIV 167

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 32/120 (26%), Positives = 60/120 (50%), Gaps = 5/120 (4%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G    GKT+F+   A   F+   + TVG  F ++ V + +  V ++IWD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFSEDMIPTVG--FNMRKVTKGN--VTIKIWDIGGQP 78
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
           R+R++   Y RG    + M D  + E   + ++ +   +         V+++GNK D+ +
Sbjct: 79  RFRSMWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPN 138

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 19/169 (11%)
Query: 22  FKLLIIGNSSVGKTSF--LFRYADDSFTS--------AFVSTVGIDFKVKTVFRHDKRVK 71
           +++++IG   VGK++   +F    DS  S         +  T+ +D +  T+      + 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATI------IL 60
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVI 130
           L +W+  G+  +  +     +    ++++Y +T+  SF    +   Q++     ++  +I
Sbjct: 61  LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 118
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           LVGNK D+   R +S   G+  A     +F ETSA    NVK +FE +V
Sbjct: 119 LVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIV 167

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 19/169 (11%)
Query: 22  FKLLIIGNSSVGKTSF--LFRYADDSFTS--------AFVSTVGIDFKVKTVFRHDKRVK 71
           +++++IG   VGK++   +F    DS  S         +  T+ +D +  T+      + 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATI------IL 60
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVI 130
           L +W+  G+  +  +     +    ++++Y +T+  SF    +   Q++     ++  +I
Sbjct: 61  LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 118
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           LVGNK D+   R +S   G+  A     +F ETSA    NVK +FE +V
Sbjct: 119 LVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIV 167

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 80/169 (47%), Gaps = 19/169 (11%)
Query: 22  FKLLIIGNSSVGKTSF--LFRYADDSFTS--------AFVSTVGIDFKVKTVFRHDKRVK 71
           +++++IG   VGK++   +F    DS  S         +  T+ +D +  T+      + 
Sbjct: 38  YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATI------IL 91
Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVI 130
           L +W+  G+  +  +     +    ++++Y +T+  SF    +   Q++     ++  +I
Sbjct: 92  LDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPII 149
Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           LVGNK D+   R +S   G+  A     +F ETSA    NVK +FE +V
Sbjct: 150 LVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIV 198

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 53.9 bits (128), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 64/126 (50%), Gaps = 7/126 (5%)
Query: 23  KLLIIGNSSVGKTSFL--FRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK---LQIWDT 77
           KL I+GN+  GKT+ L        S      +TVGID K   +   DKR +   L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNKC 136
           AG+E + +    +      ++ +YD++  ++   + + W+  IK  +  ++ VILVG   
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARA-SSSPVILVGTHL 120
Query: 137 DMEDER 142
           D+ DE+
Sbjct: 121 DVSDEK 126

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ
Sbjct: 323 MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQ 376
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 377 DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 436
Query: 140 D 140
           D
Sbjct: 437 D 437

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 38/126 (30%), Positives = 64/126 (50%), Gaps = 7/126 (5%)
Query: 23  KLLIIGNSSVGKTSFL--FRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK---LQIWDT 77
           KL I+GN+  GKT+ L        S      +TVGID K   +   DKR +   L +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNKC 136
           AG+E + +    +      ++ +YD++  ++   + + W+  IK  +  ++ VILVG   
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARA-SSSPVILVGTHL 122
Query: 137 DMEDER 142
           D+ DE+
Sbjct: 123 DVSDEK 128

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 58/118 (49%), Gaps = 5/118 (4%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G    GKT+F+   A   F    + TVG  F ++ + + +  +KL  WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQP 78
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDM 138
           R+R++   Y RG    + M D  ++E   + ++ +   +         V+++GNK D+
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDL 136

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 31/118 (26%), Positives = 58/118 (49%), Gaps = 5/118 (4%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G    GKT+F+   A   F    + TVG  F ++ + + +  +KL  WD  GQ 
Sbjct: 32  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGNVTIKL--WDIGGQP 87
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDM 138
           R+R++   Y RG    + M D  ++E   + ++ +   +         V+++GNK D+
Sbjct: 88  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDL 145

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 41/168 (24%), Positives = 79/168 (47%), Gaps = 7/168 (4%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNICFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMED 140
           R R +   Y++   G I + D  + E    + D + ++       +A ++L  NK D+ +
Sbjct: 73  RIRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKMLLVDELRDAVLLLFANKQDLPN 132
Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
              IS    K   +SL    +   A       G++E L D + +++S+
Sbjct: 133 AMAISEMTDKLGLQSLRNRTWYVQATCATQGTGLYEGL-DWLSNELSK 179

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQ 54
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 114
Query: 140 D 140
           D
Sbjct: 115 D 115

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQ 66
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 67  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 126
Query: 140 D 140
           D
Sbjct: 127 D 127

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQ 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 68  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 127
Query: 140 D 140
           D
Sbjct: 128 D 128

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 35/121 (28%), Positives = 61/121 (50%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ
Sbjct: 1   MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQ 54
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 55  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 114
Query: 140 D 140
           D
Sbjct: 115 D 115

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 73/170 (42%), Gaps = 19/170 (11%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R       +  + T+G  F V+TV    K +K Q+WD  GQ 
Sbjct: 3   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETV--TYKNLKFQVWDLGGQT 57
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D  + +    S  + +  ++      A +++  NK DME 
Sbjct: 58  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 117
Query: 141 ERVISFERGKHLAESLGV--------EFFETSAKDNVNVKGVFERLVDII 182
               S      +A +LG+        + F+TSA     +    E LV+ +
Sbjct: 118 AMTPS-----EMANALGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 162

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/120 (29%), Positives = 60/120 (50%), Gaps = 8/120 (6%)
Query: 23  KLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L +G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  GQ+
Sbjct: 2   RILXLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGQD 55
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
           + R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ D
Sbjct: 56  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLPD 115

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  G 
Sbjct: 3   MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGL 56
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 57  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 116
Query: 140 D 140
           D
Sbjct: 117 D 117

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  G 
Sbjct: 4   MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGL 57
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 58  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 117
Query: 140 D 140
           D
Sbjct: 118 D 118

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 48.1 bits (113), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 34/121 (28%), Positives = 60/121 (49%), Gaps = 8/121 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            ++L++G  + GKT+ L++     S T+  + TVG  F V+TV    K VK  +WD  G 
Sbjct: 14  MRILMLGLDAAGKTTILYKLKLGQSVTT--IPTVG--FNVETVTY--KNVKFNVWDVGGL 67
Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDME 139
           ++ R +   YY G  G I + D  + +     +  + + I      +A +++  NK D+ 
Sbjct: 68  DKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLP 127
Query: 140 D 140
           D
Sbjct: 128 D 128

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 44/160 (27%), Positives = 73/160 (45%), Gaps = 6/160 (3%)
Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY 83
           L I+G    GK++   ++    F S +   +   +  +    H   V L++ DTA  +  
Sbjct: 24  LAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEETVDHQP-VHLRVMDTADLDTP 82
Query: 84  RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI---LVGNKCDMED 140
           R     Y   A  F+++Y V + +SF S   ++  +  ++ +  + I   L+GNK DM  
Sbjct: 83  RNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ 141
Query: 141 ERVISFERGKHLAESLGVEFFETSA-KDNVNVKGVFERLV 179
            R ++   G  LA   G  FFE SA  D  +V+ VF   V
Sbjct: 142 YRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAV 181

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 33/143 (23%), Positives = 68/143 (47%), Gaps = 11/143 (7%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNICFTVWDVGGQD 84
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
           + R +   Y++   G I + D  + E      D + + ++     +A +++  NK DM +
Sbjct: 85  KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN 144
Query: 141 ERVISFERGKHLAESLGVEFFET 163
              +S      L + LG++   +
Sbjct: 145 AMPVS-----ELTDKLGLQHLRS 162

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 72/170 (42%), Gaps = 19/170 (11%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R       +  + T+G  F V+TV    K +K Q+WD  G  
Sbjct: 5   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETVTY--KNLKFQVWDLGGLT 59
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D  + +    S  + +  ++      A +++  NK DME 
Sbjct: 60  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 119
Query: 141 ERVISFERGKHLAESLGV--------EFFETSAKDNVNVKGVFERLVDII 182
               S      +A SLG+        + F+TSA     +    E LV+ +
Sbjct: 120 AMTSS-----EMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 164

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 47.0 bits (110), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 41/173 (23%), Positives = 80/173 (46%), Gaps = 21/173 (12%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKTS L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTSILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           + R +   YY+     I + D  + +    + ++ +  +      NA +++  NK D+  
Sbjct: 73  KIRPLWRHYYQNTQAIIFVVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQ 132
Query: 141 ERVISFERGKHLAESLGVE-------FFETSAKDNVNVKGVFERLVDIICDKM 186
              IS      + E LG++       + +TS   N +  G++E L D + D +
Sbjct: 133 AMSIS-----EVTEKLGLQTIKNRKWYCQTSCATNGD--GLYEGL-DWLADNL 177

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G    GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETV--QYKNISFTVWDVGGQD 55
Query: 82  RYRTITTAYYRGAMGFILMYD 102
           R R++   YYR   G I + D
Sbjct: 56  RIRSLWRHYYRNTEGVIFVVD 76

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G    GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETV--QYKNISFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYD 102
           R R++   YYR   G I + D
Sbjct: 73  RIRSLWRHYYRNTEGVIFVID 93

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G    GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDGAGKTTVLYKLKLGEVITT-IPTIG--FNVETV--QYKNISFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYD 102
           R R++   YYR   G I + D
Sbjct: 73  RIRSLWRHYYRNTEGVIFVVD 93

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 220
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + E     ++ + ++         V+LV  NK D+ +
Sbjct: 221 KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 280

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + E     ++ + ++         V+LV  NK D+ +
Sbjct: 73  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 132

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 1   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 55
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + E     ++ + ++         V+LV  NK D+ +
Sbjct: 56  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 115

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 17  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 71
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + E     ++ + ++         V+LV  NK D+ +
Sbjct: 72  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 131

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 30/118 (25%), Positives = 59/118 (50%), Gaps = 8/118 (6%)
Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQE 81
           ++L++G  + GKT+ L++       +  + T+G  F V+TV FR+   +   +WD  GQ+
Sbjct: 19  RILMVGLDAAGKTTILYKVKLGEVVTT-IPTIG--FNVETVEFRN---ISFTVWDVGGQD 72
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDM 138
           + R +   YY    G I + D  + E     ++ + + I      +A +++  NK D+
Sbjct: 73  KIRPLWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDL 130

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 29/120 (24%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ+
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQD 75
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + +     +D + ++         V+LV  NK D+ +
Sbjct: 76  KIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPN 135

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 30/117 (25%), Positives = 53/117 (45%), Gaps = 6/117 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R           +   I F V+T+    K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRL---QIGEVVTTKPTIGFNVETL--SYKNLKLNVWDLGGQT 73
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESF-TSIQDWITQIKTYSWDNAQVILVGNKCD 137
             R     YY      I + D T+++   T+ ++    ++     +A +++  NK D
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQD 130

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/120 (23%), Positives = 57/120 (47%), Gaps = 6/120 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  G +
Sbjct: 3   MRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGLD 57
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R +   Y++   G I + D  + E     ++ + ++         V+LV  NK D+ +
Sbjct: 58  KIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN 117

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 25/92 (27%), Positives = 44/92 (47%), Gaps = 5/92 (5%)
Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +LL++G  + GKT+ L ++  +   +    T+G  F +KT+    +  KL IWD  GQ+
Sbjct: 17  LRLLMLGLDNAGKTTILKKFNGEDIDT-ISPTLG--FNIKTL--EHRGFKLNIWDVGGQK 71
Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQ 113
             R+    Y+    G I + D  + +     Q
Sbjct: 72  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQ 103

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	221
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-112
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-110
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-109
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-109
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-108
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-106
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-105
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-105
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-105
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-105
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-105
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-104
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-104
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-104
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-104
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-104
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-103
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-103
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-103
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-102
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-102
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-102
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-101
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-101
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-100
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	3e-99
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-99
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	5e-99
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	8e-99
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-98
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	7e-97
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	2e-96
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	7e-96
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-94
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	3e-93
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	8e-92
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-91
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-89
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-88
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-88
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	5e-88
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	6e-87
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	6e-82
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	1e-81
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	9e-81
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-79
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	3e-77
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-76
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	3e-76
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	5e-76
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-74
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-74
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-73
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	2e-73
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-73
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-72
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	5e-72
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	6e-72
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-70
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	1e-70
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-70
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	4e-70
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	7e-69
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-67
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-66
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-63
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	3e-62
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-62
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	4e-61
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-59
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	5e-57
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	4e-48
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-47
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	2e-46
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	2e-45
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	5e-45
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	7e-45
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	4e-44
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-43
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	3e-42
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-41
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	2e-41
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	1e-39
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	3e-37
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	3e-28
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	1e-21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	1e-15
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	2e-15
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-12
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-12
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	3e-12
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	4e-12
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	5e-12
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	7e-12
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	7e-12
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	1e-11
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	1e-11
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-11
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	8e-11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	3e-09
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-09
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	5e-09
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	1e-08
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	1e-07
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-07
1nrj_B	218	SR-beta, signal recognition particle receptor beta	4e-07
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-07
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	2e-06
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	2e-05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	1e-04

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  319 bits (819), Expect = e-112
 Identities = 153/198 (77%), Positives = 173/198 (87%), Gaps = 1/198 (0%)

Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
               FDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFKVKT++R+DKR+KLQ
Sbjct: 1   GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQ 60

Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAG ERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQV+LVG
Sbjct: 61  IWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVG 120

Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL-DS 192
           NKCDMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLVD+IC+KMSESL  +
Sbjct: 121 NKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTA 180

Query: 193 DPNLVAGPKGTRLTEQPQ 210
           DP +    +G +LT+Q  
Sbjct: 181 DPAVTGAKQGPQLTDQQA 198

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  314 bits (806), Expect = e-110
 Identities = 142/189 (75%), Positives = 160/189 (84%), Gaps = 1/189 (0%)

Query: 1   MAGVGETK-WQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK 59
           M               +  DYMFKLL+IGNSSVGKTSFLFRYADDSFT AFVSTVGIDFK
Sbjct: 1   MGSSHHHHHHSSGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK 60

Query: 60  VKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI 119
           VKTV+RHDKR+KLQIWDTAGQERYRTITTAYYRGAMGF+LMYD+ N+ESF ++QDW TQI
Sbjct: 61  VKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQI 120

Query: 120 KTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           KTYSWDNAQVILVGNKCD+EDERV+  E G+ LA+ LG EFFE SAK+N+NVK VFERLV
Sbjct: 121 KTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLV 180

Query: 180 DIICDKMSE 188
           D+IC+KM+E
Sbjct: 181 DVICEKMNE 189

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  310 bits (797), Expect = e-109
 Identities = 90/207 (43%), Positives = 136/207 (65%), Gaps = 2/207 (0%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           +  +DY+FKLL+IGNS VGK+  L R++DD++T+ ++ST+G+DFK+KTV    K VKLQI
Sbjct: 2   NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 61

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+RTIT++YYRG+ G I++YDVT++ESF  ++ W+ +I  Y+      +LVGN
Sbjct: 62  WDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGN 121

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP 194
           KCD++D+RV+ ++  K  A++  + F ETSA D+ NV+  F  +   I + MS+   ++ 
Sbjct: 122 KCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNET 181

Query: 195 NLVAGPKGTRLTEQPQRNNPINPNCNC 221
                 KG    +     N     C C
Sbjct: 182 TQKKEDKGNVNLKGQSLTN--TGGCCC 206

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  309 bits (795), Expect = e-109
 Identities = 145/180 (80%), Positives = 162/180 (90%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
           +      NFDYMFKLLIIGNSSVGKTSFLFRYADD+FT AFVSTVGIDFKVKTV+RH+KR
Sbjct: 12  ENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKR 71

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV 129
           VKLQIWDTAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQV
Sbjct: 72  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQV 131

Query: 130 ILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           ILVGNKCDME+ERV+  E+G+ LAE LG +FFE SAK+N++V+  FERLVD ICDKMS+S
Sbjct: 132 ILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMSDS 191

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  307 bits (790), Expect = e-108
 Identities = 95/181 (52%), Positives = 137/181 (75%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
            + +DY+FKLL+IG+S VGKT  LFR+++D+F S F+ST+GIDFK++T+    KR+KLQI
Sbjct: 2   AKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 61

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+RTITTAYYRGAMG +L+YD+TNE+SF +I++WI  I+ ++  + + +++GN
Sbjct: 62  WDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGN 121

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP 194
           KCD+ D+R +S ERG+ LA   G++F ETSAK N+NV+  F  L   I  KM ++  +  
Sbjct: 122 KCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATA 181

Query: 195 N 195
            
Sbjct: 182 A 182

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  304 bits (780), Expect = e-106
 Identities = 85/193 (44%), Positives = 132/193 (68%)

Query: 9   WQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK 68
               + +  +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K
Sbjct: 4   GSMSSMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGK 63

Query: 69  RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ 128
            +KLQIWDTAGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N  
Sbjct: 64  TIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN 123

Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
            +LVGNKCD+  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M  
Sbjct: 124 KLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGP 183

Query: 189 SLDSDPNLVAGPK 201
              +     +  K
Sbjct: 184 GATAGGAEKSNVK 196

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  301 bits (774), Expect = e-105
 Identities = 84/174 (48%), Positives = 129/174 (74%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           + +  +DY+FKLL+IG+S VGK+  L R+ADD++T +++ST+G+DFK++T+    K +KL
Sbjct: 25  SMNPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKL 84

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAGQER+RTIT++YYRGA G I++YDVT++ESF +++ W+ +I  Y+ +N   +LV
Sbjct: 85  QIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLV 144

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           GNKCD+  ++V+ +   K  A+SLG+ F ETSAK+  NV+  F  +   I  +M
Sbjct: 145 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 198

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  300 bits (771), Expect = e-105
 Identities = 81/179 (45%), Positives = 129/179 (72%), Gaps = 1/179 (0%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
            +++D++FKLLIIG+S VGK+S L R+AD++F+ ++++T+G+DFK++TV  + ++VKLQI
Sbjct: 3   ARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI 62

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+RTIT+ YYRG  G I++YDVT+ ESF +++ W+ +I     D+   ILVGN
Sbjct: 63  WDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQN-CDDVCRILVGN 121

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSD 193
           K D  + +V+  E     A  +G++ FETSAK+NVNV+ +F  + +++     ++L   
Sbjct: 122 KNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  300 bits (771), Expect = e-105
 Identities = 82/189 (43%), Positives = 131/189 (69%), Gaps = 11/189 (5%)

Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV---------- 63
           +D ++DY+ K L +G+S VGKTS L++Y D  F S F++TVGIDF+ K V          
Sbjct: 4   SDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGA 63

Query: 64  FRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS 123
               +R+ LQ+WDTAG ER+R++TTA++R AMGF+L++D+TNE+SF ++++WI+Q++ ++
Sbjct: 64  VGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHA 123

Query: 124 W-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           + +N  ++L GNK D+ED+R +  E  + LAE  G+ +FETSA +  N+    E L+D+I
Sbjct: 124 YSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

Query: 183 CDKMSESLD 191
             +M  S+D
Sbjct: 184 MKRMERSVD 192

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  300 bits (771), Expect = e-105
 Identities = 95/218 (43%), Positives = 143/218 (65%), Gaps = 5/218 (2%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           M+G+  T        +++D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+
Sbjct: 1   MSGL-RTVSASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKI 59

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           KTV  + K+VKLQ+WDTAGQER+RTITTAYYRGAMG IL+YDVT+E +FT+I+ W   + 
Sbjct: 60  KTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVN 119

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
            ++ D AQ++LVGNK DME  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  
Sbjct: 120 EHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAK 178

Query: 181 IICDKMSESLDSDPNLVAGPKGTRLTEQPQRNNPINPN 218
           +I +K+  +           K   ++      N    N
Sbjct: 179 LIQEKIDSNKLVGVG---NGKEGNISINSGSGNSSKSN 213

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  300 bits (770), Expect = e-105
 Identities = 79/189 (41%), Positives = 115/189 (60%), Gaps = 1/189 (0%)

Query: 5   GETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF 64
           G         D+ +D++FKL+++G++SVGKT  + R+   +F+    ST+G+DF +KT+ 
Sbjct: 13  GLVPRGSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLE 72

Query: 65  RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW 124
              KRVKLQIWDTAGQER+RTIT +YYR A G IL YD+T   SF S+  WI  ++ Y+ 
Sbjct: 73  IQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAG 132

Query: 125 DNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVKGVFERLVDIIC 183
            N   +L+GNK D+ + R +S    + LAE   +    ETSAKD+ NV+  F R+   + 
Sbjct: 133 SNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELI 192

Query: 184 DKMSESLDS 192
            +    L S
Sbjct: 193 MRHGGPLFS 201

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  299 bits (767), Expect = e-104
 Identities = 83/175 (47%), Positives = 123/175 (70%), Gaps = 1/175 (0%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
            + +  D+  +++IIG+  VGKTS + R+ DD+F  A  STVG+DFK+KTV    K+++L
Sbjct: 18  GSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRL 77

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAGQER+ +IT+AYYR A G IL+YD+T +E+F  +  W+  I  Y+ ++A+++LV
Sbjct: 78  QIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLV 137

Query: 133 GNKCDMEDERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           GNK D E +R I+ ++G+  A+ + G+ F E SAKDN NV  +F +LVD I  KM
Sbjct: 138 GNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  300 bits (769), Expect = e-104
 Identities = 78/208 (37%), Positives = 134/208 (64%), Gaps = 15/208 (7%)

Query: 1   MAGVGETKWQ----KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGI 56
           M                   ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGI
Sbjct: 1   MGSSHHHHHHSSGLVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGI 60

Query: 57  DFKVKTVFRHDK----------RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE 106
           DF+ K V  + +          +V LQ+WDTAGQER+R++TTA++R AMGF+LM+D+T++
Sbjct: 61  DFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQ 120

Query: 107 ESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSA 165
           +SF ++++W++Q++  ++ +N  ++L+GNK D+ D+R ++  + + LA+  G+ +FETSA
Sbjct: 121 QSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSA 180

Query: 166 KDNVNVKGVFERLVDIICDKMSESLDSD 193
               NV+   E L+D+I  +M + ++  
Sbjct: 181 ATGQNVEKAVETLLDLIMKRMEQCVEKT 208

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  297 bits (762), Expect = e-104
 Identities = 77/178 (43%), Positives = 116/178 (65%), Gaps = 1/178 (0%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGIDFKVKTVFRHDKRVK 71
           +    +D  FK++++G+S VGKT  L R+ D +F +  F+STVGIDF+ K +     +VK
Sbjct: 2   SGVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVK 61

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
           LQ+WDTAGQER+R++T AYYR A   +L+YDVTN+ SF +IQ W+T+I  Y+  +  ++L
Sbjct: 62  LQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALML 121

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           +GNK D   ERV+  E G+ LA+  G+ F ETSAK  +NV   F  +   +  +  ++
Sbjct: 122 LGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKA 179

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  297 bits (763), Expect = e-104
 Identities = 71/187 (37%), Positives = 122/187 (65%), Gaps = 1/187 (0%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
               + +++D++FK+++IGN+ VGKT  + R+    F     +T+G+DF +KTV  + ++
Sbjct: 15  VPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEK 74

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV 129
           VKLQIWDTAGQER+R+IT +YYR A   IL YD+T EESF  + +W+ +I+ Y+ +    
Sbjct: 75  VKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVIT 134

Query: 130 ILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE- 188
           +LVGNK D+ + R +S +R +  +E+  + + ETSAK++ NV+ +F  L   +  +  + 
Sbjct: 135 VLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQN 194

Query: 189 SLDSDPN 195
           +L ++ +
Sbjct: 195 TLVNNVS 201

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  297 bits (762), Expect = e-104
 Identities = 70/190 (36%), Positives = 104/190 (54%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
           M                  Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  
Sbjct: 1   MGSSHHHHHHSSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGA 60

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK 120
           + V    K++KLQIWDTAGQE +R+IT +YYRGA G +L+YD+T  E+F  +  W+   +
Sbjct: 61  RMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDAR 120

Query: 121 TYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
            +S  N  ++L+GNK D+E  R +  E G+  A   G+ F ETSAK   NV+  F     
Sbjct: 121 QHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAK 180

Query: 181 IICDKMSESL 190
            I  K+ + L
Sbjct: 181 EIYRKIQQGL 190

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  296 bits (761), Expect = e-103
 Identities = 69/192 (35%), Positives = 115/192 (59%), Gaps = 4/192 (2%)

Query: 1   MAGVGETKW----QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGI 56
           M                  ++++++FK+++IG S VGKT+ L R+  + F+    +T+G+
Sbjct: 1   MGSSHHHHHHSSGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGV 60

Query: 57  DFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWI 116
           +F  +TV      VK QIWDTAG ERYR IT+AYYRGA+G +L++D+T  +++  ++ W+
Sbjct: 61  EFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWL 120

Query: 117 TQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE 176
            ++  ++     V+LVGNK D+   R +  E  +  AE+ G+ F ETSA D+ NV+  FE
Sbjct: 121 KELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFE 180

Query: 177 RLVDIICDKMSE 188
            ++  I  K+S+
Sbjct: 181 TVLKEIFAKVSK 192

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  296 bits (760), Expect = e-103
 Identities = 68/198 (34%), Positives = 120/198 (60%), Gaps = 3/198 (1%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGNK D
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 121

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDP--- 194
           +   R +  +  +  AE   + F ETSA D+ NV+  F+ ++  I   +S+   +D    
Sbjct: 122 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAH 181

Query: 195 NLVAGPKGTRLTEQPQRN 212
           +   G     ++  P  +
Sbjct: 182 DESPGNNVVDISVPPTTD 199

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  296 bits (760), Expect = e-103
 Identities = 79/219 (36%), Positives = 128/219 (58%), Gaps = 9/219 (4%)

Query: 12  DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK 71
           +    ++D +FK+++IG+S VGK++ L R+  + F     ST+G++F  +T+    KR+K
Sbjct: 4   EDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIK 63

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
            QIWDTAGQERYR IT+AYYRGA+G +++YD++   S+ +   W+++++  + DN  V L
Sbjct: 64  AQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGL 123

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE--- 188
           +GNK D+   R +  E  K  A+   + F ETSA ++ NV   FE L++ I  K+S+   
Sbjct: 124 IGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQM 183

Query: 189 -----SLDSDPNLVAGPKGTRLTEQPQRNNPINPN-CNC 221
                S + + N  + P G  ++  P  N     N  NC
Sbjct: 184 DLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNC 222

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  292 bits (750), Expect = e-102
 Identities = 89/171 (52%), Positives = 130/171 (76%), Gaps = 1/171 (0%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQIWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQER+RTITTAYYRGAMG IL+YD+T+E +FT+I+ W   +  ++ D AQ++LVGNK DM
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM 120

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           E  RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+  +
Sbjct: 121 ET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSN 170

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  292 bits (750), Expect = e-102
 Identities = 66/182 (36%), Positives = 109/182 (59%), Gaps = 1/182 (0%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
            + +D++FK L+IGN+  GK+  L ++ +  F      T+G++F  K +    K VKLQI
Sbjct: 4   SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQI 63

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+R++T +YYRGA G +L+YD+T+ E++ ++ +W+T  +  +  N  +IL GN
Sbjct: 64  WDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGN 123

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE-SLDSD 193
           K D++ +R ++F      A+   + F ETSA    NV+  F +    I +K+    LD +
Sbjct: 124 KKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPE 183

Query: 194 PN 195
             
Sbjct: 184 RM 185

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  292 bits (751), Expect = e-102
 Identities = 69/181 (38%), Positives = 108/181 (59%), Gaps = 1/181 (0%)

Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
                D++FK L+IG++  GK+  L ++ ++ F      T+G++F  + V    K VKLQ
Sbjct: 18  GSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQ 77

Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           IWDTAGQER+R++T +YYRGA G +L+YD+T+ E++ S+  W+T  +T +  N  VIL G
Sbjct: 78  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCG 137

Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE-SLDS 192
           NK D++ ER ++F      A+   + F ETSA    NV+  F +    I +K+    LD 
Sbjct: 138 NKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGELDP 197

Query: 193 D 193
           +
Sbjct: 198 E 198

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  291 bits (748), Expect = e-101
 Identities = 65/182 (35%), Positives = 109/182 (59%), Gaps = 6/182 (3%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
           +  A   +    +K+++ G+++VGK+SFL R   + F     +T+G+DF++KT+    +R
Sbjct: 17  RGSAKSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGER 76

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV 129
             LQ+WDTAGQER+R+I  +Y+R A G +L+YDVT E+SF +I++W+  I+  + +   +
Sbjct: 77  TVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPI 136

Query: 130 ILVGNKCDMED------ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
           +LVGNK D+ D      ++ +    G+ LA + G  F ETSAKD  N+      L   + 
Sbjct: 137 MLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK 196

Query: 184 DK 185
            +
Sbjct: 197 KR 198

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  291 bits (746), Expect = e-101
 Identities = 80/191 (41%), Positives = 111/191 (58%), Gaps = 4/191 (2%)

Query: 12  DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK 71
              D++     K+LIIG S VGK+S L R+ DD+F     +T+G+DFKVKT+     + K
Sbjct: 6   SGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAK 65

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV-I 130
           L IWDTAGQER+RT+T +YYRGA G IL+YDVT  ++F  + +W+ +++TY   N  V +
Sbjct: 66  LAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNM 125

Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
           LVGNK D E+ R +    G   A    + F E SAK    V+  FE LV+ I        
Sbjct: 126 LVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 184

Query: 191 DSDPNLVAGPK 201
             + N  +GP 
Sbjct: 185 SENQN--SGPS 193

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  289 bits (742), Expect = e-100
 Identities = 73/209 (34%), Positives = 116/209 (55%), Gaps = 6/209 (2%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
               N    FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+L
Sbjct: 8   GDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRL 67

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           Q+WDTAG ER+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LV
Sbjct: 68  QLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLV 127

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDS 192
           GNK D+ D+R +S E G+  A+ L V F ETSAK   NVK +F R+   +    S    S
Sbjct: 128 GNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRS 187

Query: 193 DPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
             +++       +  +  +  P++     
Sbjct: 188 REDMI------DIKLEKPQEQPVSEGGCL 210

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  285 bits (731), Expect = 3e-99
 Identities = 65/170 (38%), Positives = 110/170 (64%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
             D  +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K 
Sbjct: 21  TRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKA 80

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAG ERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LV
Sbjct: 81  QIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLV 140

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           GNK D+   R +  +  +  AE  G+ F ETSA D+ NV+  F+ ++  I
Sbjct: 141 GNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  284 bits (729), Expect = 3e-99
 Identities = 62/168 (36%), Positives = 103/168 (61%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           +  Y FK++++G   VGKTS + RY ++ F    ++T+G  F  K +    KRV L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQER+  +   YYR + G IL+YD+T+E+SF  +++W+ +++    +   + +VGNK 
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKI 121

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICD 184
           D+E ER +S +  +  AES+G + + TSAK N  ++ +F  L   + +
Sbjct: 122 DLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  285 bits (732), Expect = 5e-99
 Identities = 52/185 (28%), Positives = 93/185 (50%), Gaps = 1/185 (0%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG-IDFKVKTVFRHDKRVK 71
            + +  +  +K+ +IG+  VGKT+++ R  D  F   + +TVG ++  V  +      +K
Sbjct: 3   GSMERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIK 62

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
             +WDTAGQE+   +   YY GA G IL +DVT+  +  ++  W+ + +    + A +++
Sbjct: 63  FNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVV 122

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD 191
             NK D+++ + IS +    + +    E+FE SAK   N    F  L  I   +      
Sbjct: 123 CANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFV 182

Query: 192 SDPNL 196
           S+ NL
Sbjct: 183 SNVNL 187

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  283 bits (727), Expect = 8e-99
 Identities = 64/170 (37%), Positives = 103/170 (60%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
            A  N+ Y+FK +IIG+  VGK+  L ++ +  F +    T+G++F  + +    +++KL
Sbjct: 7   TAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKL 66

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           QIWDTAGQER+R +T +YYRGA G +++YD+T   ++  +  W+T  +  +  N  +IL+
Sbjct: 67  QIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILI 126

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           GNK D+E +R +++E  K  AE  G+ F E SAK   NV+  F      I
Sbjct: 127 GNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 176

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  282 bits (725), Expect = 1e-98
 Identities = 61/167 (36%), Positives = 98/167 (58%), Gaps = 1/167 (0%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           +   K++++GN +VGK+S + RY    FT  +  T+G+DF  + +  +D+ V+L +WDTA
Sbjct: 3   EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTA 62

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM 138
           GQE +  IT AYYRGA   +L++  T+ ESF +I  W  ++      +    LV NK D+
Sbjct: 63  GQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDL 121

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
            D+  I  E  + LA+ L + F+ TS K+++NV  VF+ L +    K
Sbjct: 122 LDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQK 168

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  279 bits (717), Expect = 7e-97
 Identities = 62/210 (29%), Positives = 113/210 (53%), Gaps = 9/210 (4%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
                + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIW
Sbjct: 3   SRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIW 62

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY----SWDNAQVIL 131
           DTAGQER++++  A+YRGA   +L++DVT   +F ++  W  +          +N   ++
Sbjct: 63  DTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVV 122

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD 191
           +GNK D+E+ +V +            + +FETSAK+ +NV+  F+ +      + +E   
Sbjct: 123 LGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVEL 182

Query: 192 SDPNLVAGPKGTRLTEQPQRNNPINPNCNC 221
            +      P+  +L  + +R      +C+C
Sbjct: 183 YNEF----PEPIKLD-KNERAKASAESCSC 207

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  277 bits (712), Expect = 2e-96
 Identities = 62/175 (35%), Positives = 100/175 (57%), Gaps = 5/175 (2%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
               +   +FK+++IG+S+VGKT   +R+    F     +T+G+DF+ + V    +R+K+
Sbjct: 12  VPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKI 71

Query: 73  QIWDTAGQERYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN-AQVI 130
           Q+WDTAGQER+R ++   YYR     + +YD+TN  SF S+  WI + K +   N    I
Sbjct: 72  QLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRI 131

Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK---DNVNVKGVFERLVDII 182
           LVGNKCD+     +  +  +  A++  +  FETSAK   DN +V+ +F  L   +
Sbjct: 132 LVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  276 bits (708), Expect = 7e-96
 Identities = 71/171 (41%), Positives = 106/171 (61%)

Query: 12  DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK 71
                N    FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ V+
Sbjct: 5   SGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVR 64

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
           LQ+WDTAGQER+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++L
Sbjct: 65  LQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIML 124

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           VGNK D+ D+R +S E G+  A+ L V F ETSAK   NVK +F R+   +
Sbjct: 125 VGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  273 bits (700), Expect = 1e-94
 Identities = 55/177 (31%), Positives = 93/177 (52%), Gaps = 5/177 (2%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIW 75
           +     K++++G+ + GKTS    +A ++F   +  T+G+DF ++ +       V LQIW
Sbjct: 2   SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD---NAQVILV 132
           D  GQ     +   Y  GA G +L+YD+TN +SF +++DW T +K  S +      V LV
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALV 121

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSE 188
           GNK D+E  R I  E+     +  G      SAK   +V   F+++  +I+  K+++
Sbjct: 122 GNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  270 bits (692), Expect = 3e-93
 Identities = 57/177 (32%), Positives = 100/177 (56%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
               +     K+ ++G++ VGK+S + R+  D F      T+G  F  KTV   ++  K 
Sbjct: 15  VPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKF 74

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
            IWDTAGQER+ ++   YYRG+   +++YD+T ++SF +++ W+ ++K +  +N  + + 
Sbjct: 75  LIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIA 134

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           GNKCD+ D R +  +  K  AES+G    ETSAK+ +N++ +F+ +   I       
Sbjct: 135 GNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 191

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  265 bits (681), Expect = 8e-92
 Identities = 58/161 (36%), Positives = 99/161 (61%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ ++G++ VGK+S ++R+ +DSF      T+G  F  KTV   ++  K  IWDTAG E
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 66

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R +   YYRG+   I++YD+T EE+F+++++W+ +++ +   +  V + GNKCD+ D 
Sbjct: 67  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 126

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +     K  A+S+   F ETSAK+ +N+  +F  +   I
Sbjct: 127 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 167

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  266 bits (683), Expect = 2e-91
 Identities = 50/200 (25%), Positives = 94/200 (47%), Gaps = 5/200 (2%)

Query: 12  DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK 71
            AA       FKL+++G+   GKT+F+ R+    F   +V+T+G++        +   +K
Sbjct: 6   SAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIK 65

Query: 72  LQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
             +WDTAGQE++  +   YY  A   I+M+DVT+  ++ ++ +W   +     +N  ++L
Sbjct: 66  FNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVL 124

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD 191
            GNK D++D +V    +         +++++ SAK N N +  F  L   +    +    
Sbjct: 125 CGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFV 182

Query: 192 SDPNLVAGPKGTRLTEQPQR 211
           + P L   P    +      
Sbjct: 183 AMPALA--PPEVVMDPALAA 200

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  260 bits (666), Expect = 2e-89
 Identities = 64/177 (36%), Positives = 97/177 (54%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           AA  N     KL+++G+   GK+S + R+  D F     ST+G  F  +T+  +D  VK 
Sbjct: 4   AAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKF 63

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
           +IWDTAGQERY ++   YYRGA   I+++DVTN+ SF   + W+ +++     N  + L 
Sbjct: 64  EIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALA 123

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           GNK D+ D R ++ E  +  A+  G+ F ETSAK   NVK +F  +   +       
Sbjct: 124 GNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  258 bits (661), Expect = 1e-88
 Identities = 64/178 (35%), Positives = 107/178 (60%), Gaps = 7/178 (3%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQI 74
                + K++I+G+S VGKTS + RY +D ++  + +T+G DF  K V    DK   +Q+
Sbjct: 3   SRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQV 62

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW----DNAQVI 130
           WDTAGQER++++  A+YRGA   +L+YDVTN  SF +I+ W  +   ++     +    +
Sbjct: 63  WDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFV 122

Query: 131 LVGNKCDMED-ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDIICDKM 186
           ++GNK D E+ ++++S +  + LA+SLG +  F TSAK+ +NV   FE +      + 
Sbjct: 123 ILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN 180

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  257 bits (660), Expect = 4e-88
 Identities = 44/202 (21%), Positives = 89/202 (44%), Gaps = 9/202 (4%)

Query: 3   GVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYAD--DSFTSAFVSTVGIDFKV 60
                K +    D       K+ ++G ++VGK++ +  +      F   +  T G++  V
Sbjct: 2   AASMVKKEVKPIDITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVV 61

Query: 61  KTVFRHDKRVKLQIW--DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ 118
             V   D  V ++++  DTAG + Y+   + Y+ G    IL++DV++ ESF S + W   
Sbjct: 62  APVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFEL 121

Query: 119 IKTYSWD---NAQVILVGNKCDMEDER-VISFERGKHLAESLGVEFFETSAK-DNVNVKG 173
           +K+   D     + +LV NK D+  +R  +  +  +  A +  ++FF+ SA     +   
Sbjct: 122 LKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADA 181

Query: 174 VFERLVDIICDKMSESLDSDPN 195
            F  +         + + +  +
Sbjct: 182 PFLSIATTFYRNYEDKVAAFQD 203

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  256 bits (656), Expect = 5e-88
 Identities = 56/175 (32%), Positives = 96/175 (54%), Gaps = 6/175 (3%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
               +FK++++G+  VGK+S + RY  + F +    T+G++F  K +      V +QIWD
Sbjct: 3   GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILV 132
           TAGQER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y+     ++   +++
Sbjct: 63  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVIL 122

Query: 133 GNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDIICDKM 186
           GNK D+ + R +S E  +      G   +FETSAKD  NV   FE  V  +    
Sbjct: 123 GNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE 176

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  253 bits (648), Expect = 6e-87
 Identities = 63/163 (38%), Positives = 99/163 (60%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
             FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAG
Sbjct: 5   CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAG 64

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QERY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ 
Sbjct: 65  QERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLA 124

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ++R + F+  +  A+   + F ETSAK ++NV  +F  +   +
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  242 bits (619), Expect = 6e-82
 Identities = 64/197 (32%), Positives = 99/197 (50%), Gaps = 3/197 (1%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
                 QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V    + 
Sbjct: 3   ANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEE 61

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQ 128
           V++ I DTAGQE Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI      +N  
Sbjct: 62  VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP 121

Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMS 187
            +LVGNK D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM 
Sbjct: 122 FLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKME 181

Query: 188 ESLDSDPNLVAGPKGTR 204
           +S + +          R
Sbjct: 182 DSKEKNGKKKRKSLAKR 198

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  240 bits (615), Expect = 1e-81
 Identities = 63/181 (34%), Positives = 96/181 (53%), Gaps = 3/181 (1%)

Query: 11  KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV 70
                QN   + K++++G+  VGK++   ++  D F   +  T    ++ K V    + V
Sbjct: 8   GGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEV 66

Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQV 129
           ++ I DTAGQE Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI      +N   
Sbjct: 67  QIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF 126

Query: 130 ILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSE 188
           +LVGNK D+ED+R +S E  K+ AE   V + ETSAK   NV  VF  L+ +I   KM +
Sbjct: 127 LLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

Query: 189 S 189
           S
Sbjct: 187 S 187

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  238 bits (610), Expect = 9e-81
 Identities = 45/177 (25%), Positives = 83/177 (46%), Gaps = 2/177 (1%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
               D +FK++++G S VGK++    +      SA       D   + +    + V L +
Sbjct: 17  QGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVV 76

Query: 75  WDTAGQERYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILV 132
           +D   Q      +     +    F++++ VT+  SF+ + + + +++      +  VILV
Sbjct: 77  YDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILV 136

Query: 133 GNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           GNK D+   R +S E G+HLA +L  +  ETSA  + N + +FE  V  I  +   +
Sbjct: 137 GNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRN 193

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  235 bits (602), Expect = 2e-79
 Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 4/183 (2%)

Query: 10  QKDAADQNFDYM--FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD 67
           +++   Q    +   K++I+G   VGKTS   ++ +  F+  +  TV   +  K V    
Sbjct: 11  RENLYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGK 69

Query: 68  KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDN 126
               L + DTAGQ+ Y  +  ++  G  G++L+Y VT+  SF  I+    ++ + +    
Sbjct: 70  DEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTR 129

Query: 127 AQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
             V+LVGNK D+  ER +    GK LAES G  F E+SA++N   +G+F +++  I    
Sbjct: 130 VPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVE 189

Query: 187 SES 189
           +  
Sbjct: 190 NSY 192

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  228 bits (585), Expect = 3e-77
 Identities = 43/164 (26%), Positives = 79/164 (48%), Gaps = 2/164 (1%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK++++G S VGK++    +       A       D   + +    + V L ++D   Q
Sbjct: 2   VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQ 61

Query: 81  ERYR-TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDM 138
                 +     +    F++++ VT+  SF+ + + + +++      +  VILVGNK D+
Sbjct: 62  GDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
              R +S E G+HLA +L  +  ETSA  + N + +FE  V  I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  227 bits (582), Expect = 1e-76
 Identities = 57/171 (33%), Positives = 86/171 (50%), Gaps = 2/171 (1%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
              K+ I+G  SVGK+S   ++ +  F  ++  T+   F  K +  + +   LQ+ DTAG
Sbjct: 5   KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAG 63

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDM 138
           Q+ Y      Y     G+IL+Y VT+ +SF  I+    ++          ++LVGNK D+
Sbjct: 64  QDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDL 123

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
             ERVIS+E GK LAES    F E+SAK+N     VF R++          
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGAC 174

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  226 bits (579), Expect = 3e-76
 Identities = 53/174 (30%), Positives = 82/174 (47%), Gaps = 2/174 (1%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
               KL+++G   VGK++   ++    F S +  T+  D   K         +L I DTA
Sbjct: 7   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTA 65

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCD 137
           GQE +  +   Y R   GF+L++ + + +SF  +    TQI      D+  V+LVGNK D
Sbjct: 66  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 125

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD 191
           +E +R +          S  V +FE SAK  +NV   FE+LV  +     + L 
Sbjct: 126 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQELP 179

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  227 bits (580), Expect = 5e-76
 Identities = 58/207 (28%), Positives = 89/207 (42%), Gaps = 40/207 (19%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVK----- 71
                +K +++G SSVGK+S + R   D+F     +T+G  F    V  +D  +K     
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 72  --------------------------------LQIWDTAGQERYRTITTAYYRGAMGFIL 99
                                             IWDTAGQERY +I   YYRGA   I+
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVE 159
           ++D++N  +    + W+ Q+K  S  N  +ILV NK D      +     +  A+   + 
Sbjct: 123 VFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKIDKNK-FQVDILEVQKYAQDNNLL 179

Query: 160 FFETSAKDNVNVKGVFERLVDIICDKM 186
           F +TSAK   N+K +F  L + I   +
Sbjct: 180 FIQTSAKTGTNIKNIFYMLAEEIYKNI 206

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  221 bits (566), Expect = 2e-74
 Identities = 56/163 (34%), Positives = 93/163 (57%), Gaps = 3/163 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+   ++ K V    ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 141 ERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVFERLVDII 182
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV  I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  222 bits (567), Expect = 2e-74
 Identities = 50/172 (29%), Positives = 87/172 (50%), Gaps = 3/172 (1%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           A        +KL+++G+  VGK++   ++    F   +  T+  D  +K     ++   L
Sbjct: 10  AVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQWAIL 68

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVIL 131
            + DTAGQE +  +   Y R   GF+++Y VT++ SF  +  +   I      ++  +IL
Sbjct: 69  DVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMIL 128

Query: 132 VGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN-VNVKGVFERLVDII 182
           V NK D+   R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 129 VANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 180

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  219 bits (560), Expect = 1e-73
 Identities = 55/162 (33%), Positives = 89/162 (54%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K++++G+  VGK++   ++   +F   +  T+  DF  K +        L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++ ++   Y +   GFIL+Y + N++SF  I+    QI +   ++   VILVGNK D+E 
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           ER +S   G+ LAE  G  F ETSAK    V  +F  +V  +
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  220 bits (562), Expect = 2e-73
 Identities = 55/171 (32%), Positives = 87/171 (50%), Gaps = 3/171 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 22  YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 80

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 81  EYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLP- 139

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLD 191
            R +  ++   LA+S G+ F ETSAK    V+  F  LV  I     + L+
Sbjct: 140 TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKLN 190

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  219 bits (560), Expect = 2e-73
 Identities = 46/167 (27%), Positives = 81/167 (48%), Gaps = 3/167 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +++ + G   VGK+S + R+   +F  +++ TV   ++ + +        LQI DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV--ILVGNKCDME 139
           ++  +          FIL+Y +T+ +S   ++    QI     D   +  +LVGNKCD  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
             R +     + LA +    F ETSAK N NVK +F+ L+++   + 
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRT 169

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  216 bits (553), Expect = 3e-72
 Identities = 41/178 (23%), Positives = 83/178 (46%), Gaps = 15/178 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFT--SAFVSTVGIDFKVKTVFRHDKR---VKLQIWD 76
            KL+I+GN+  GKT+ L +      +      +TVGID K   +   DKR   + L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNK 135
            AG+E + +    +      ++ +YD++  ++   +++ W+  IK  +  ++ VILVG  
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTH 121

Query: 136 CDMEDER---VISFERGKHLAESLGVE-----FFETSAKDNVNVKGVFERLVDIICDK 185
            D+ DE+       +  K L    G        F  + +++  +  + + +++   + 
Sbjct: 122 LDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNF 179

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  216 bits (553), Expect = 5e-72
 Identities = 48/187 (25%), Positives = 87/187 (46%), Gaps = 5/187 (2%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
              +++++ G   VGK+S + R+   +F   ++ T+   ++ + +        LQI DT 
Sbjct: 6   SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTT 64

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK--TYSWDNAQVILVGNKC 136
           G  ++  +          FIL++ VT+++S   +      I     S ++  V+LVGNKC
Sbjct: 65  GSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKC 124

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV-DIICDKMSESLDSDPN 195
           D E +R +     + +A+     F ETSAK N NVK +F+ L+       MS ++D   +
Sbjct: 125 D-ETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDGKRS 183

Query: 196 LVAGPKG 202
                  
Sbjct: 184 GKQKRTD 190

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  215 bits (550), Expect = 6e-72
 Identities = 57/166 (34%), Positives = 90/166 (54%), Gaps = 2/166 (1%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK++   ++  D F   +  T    ++ K V    + V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQ 62

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDME 139
           E Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI      +N   +LVGNK D+E
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           D+R +S E  K+ A+   V + ETSAK   NV  VF  L+  I  +
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  211 bits (541), Expect = 1e-70
 Identities = 52/162 (32%), Positives = 81/162 (50%), Gaps = 3/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F      T+   ++ K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNK D+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA- 121

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            R +   + + LA S G+ + ETSAK    V+  F  LV  I
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  212 bits (542), Expect = 1e-70
 Identities = 57/184 (30%), Positives = 89/184 (48%), Gaps = 4/184 (2%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+   ++ K V    +   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     ++  ++LVGNKCD+  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP- 122

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLVAGP 200
            R +  ++ + LA S G+ F ETSAK    V   F  LV  I  K  E +  D       
Sbjct: 123 SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI-RKHKEKMSKDGKKKKKK 181

Query: 201 KGTR 204
             T+
Sbjct: 182 SKTK 185

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  211 bits (538), Expect = 3e-70
 Identities = 62/167 (37%), Positives = 96/167 (57%), Gaps = 3/167 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL+++G ++VGK+S + R+  + F      T+G  F  + V  ++  VK +IWDTAGQE
Sbjct: 4   IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQE 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD---M 138
           R+ ++   YYR A   +++YDVT  +SF   + W+ ++   +  +  + LVGNK D    
Sbjct: 64  RFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQE 123

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
             ER ++ E G+ LAE  G+ FFETSAK   NV  VF  + + I  K
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  210 bits (537), Expect = 4e-70
 Identities = 40/163 (24%), Positives = 77/163 (47%), Gaps = 3/163 (1%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           ++K+L++G   VGK++    +             G  +  +++    +   L ++D   Q
Sbjct: 2   VYKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAGHTYD-RSIVVDGEEASLMVYDIWEQ 59

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDME 139
           +  R +          ++++Y VT++ SF    +   Q++     D+  +ILVGNK D+ 
Sbjct: 60  DGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLV 119

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
             R +S + G+  A     +F ETSA  + NV+ +FE +V  I
Sbjct: 120 RSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  207 bits (530), Expect = 7e-69
 Identities = 45/171 (26%), Positives = 83/171 (48%), Gaps = 4/171 (2%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++++++G+  VGKTS    +A           +G D   +T+    +   L + DT   E
Sbjct: 5   YRVVLLGDPGVGKTSLASLFAGKQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAE 63

Query: 82  RYRTITT--AYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDM 138
           +     +  +  +G   ++++Y + +  SF S  +   Q++ T+  D+  +ILVGNK D+
Sbjct: 64  KLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADL 123

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
              R +S E G+  A     +F ETSA    NV  +FE +V  +  +  +S
Sbjct: 124 ARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRRDS 174

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  206 bits (525), Expect = 1e-67
 Identities = 39/181 (21%), Positives = 83/181 (45%), Gaps = 7/181 (3%)

Query: 13  AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVF---RHDK 68
            + ++ +  +++++IG   VGK++    +A    +  +    +G D   +T+        
Sbjct: 29  ISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESAT 88

Query: 69  RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNA 127
            + L +W+  G+  +  +     +    ++++Y +T+  SF    +   Q+ +    ++ 
Sbjct: 89  IILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDI 146

Query: 128 QVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMS 187
            +ILVGNK D+   R +S   G+  A     +F ETSA    NVK +FE +V  +  +  
Sbjct: 147 PIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRD 206

Query: 188 E 188
            
Sbjct: 207 S 207

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  202 bits (517), Expect = 1e-66
 Identities = 50/170 (29%), Positives = 79/170 (46%), Gaps = 4/170 (2%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
               KL I G + VGK++ + R+    F   +  T+   ++       D+ V ++I DTA
Sbjct: 26  SAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTA 84

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCD 137
           GQE        + R   GF+L+YD+T+  SF  +      +       N  +ILVGNK D
Sbjct: 85  GQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKAD 143

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDN-VNVKGVFERLVDIICDKM 186
           ++  R +S E G+ LA  L   F+E SA     N+  +F  L   +  + 
Sbjct: 144 LDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRR 193

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  194 bits (496), Expect = 1e-63
 Identities = 41/165 (24%), Positives = 72/165 (43%), Gaps = 6/165 (3%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
             L I+G    GK++   ++    F S +   +   +         + V L++ DTA  +
Sbjct: 22  VNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVMDTADLD 80

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ---VILVGNKCDM 138
             R     Y   A  F+++Y V + +SF S   ++  +  ++ +  +    +L+GNK DM
Sbjct: 81  TPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDM 139

Query: 139 EDERVISFERGKHLAESLGVEFFETSAKDNV-NVKGVFERLVDII 182
              R ++   G  LA   G  FFE SA  +  +V+ VF   V   
Sbjct: 140 AQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREA 184

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  191 bits (488), Expect = 3e-62
 Identities = 53/177 (29%), Positives = 87/177 (49%), Gaps = 6/177 (3%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
                 +N     K++++G+ +VGKT  L  ++     +A+V TV  +F    +   ++ 
Sbjct: 12  TGAGKIENGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEE 70

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQ 128
             L +WDTAGQE Y  +    Y  +   +L + V N  SF +I   W  +IK Y  D A+
Sbjct: 71  FILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAK 129

Query: 129 VILVGNKCDMED--ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
            +LVG K D+       ++ + G  L + LG V + E S+   + +  VFE+ VD I
Sbjct: 130 TVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCI 186

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  191 bits (487), Expect = 4e-62
 Identities = 37/165 (22%), Positives = 76/165 (46%), Gaps = 11/165 (6%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ I+GN S GK++ + RY   ++     S  G  FK K +    +   L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEE-SPEGGRFK-KEIVVDGQSYLLLIRDEGGPP 78

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDM-- 138
             +     +       + ++ + +E SF ++ ++  ++ ++ +     ++LVG +  +  
Sbjct: 79  ELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISA 133

Query: 139 EDERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
            + RVI   R + L+  L    ++ET A   +NV+ VF+ +   +
Sbjct: 134 ANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKV 178

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  188 bits (480), Expect = 4e-61
 Identities = 39/173 (22%), Positives = 79/173 (45%), Gaps = 7/173 (4%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVF---RHDKRVKLQIWDT 77
           +++++IG   VGK++    +A    +  +    +G D   +T+         + L +W+ 
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWEN 66

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKC 136
            G+  +  +     +    ++++Y +T+  SF    +   Q++     ++  +ILVGNK 
Sbjct: 67  KGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKS 124

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
           D+   R +S   G+  A     +F ETSA    NVK +FE +V  +  +    
Sbjct: 125 DLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  193 bits (491), Expect = 5e-59
 Identities = 36/186 (19%), Positives = 66/186 (35%), Gaps = 12/186 (6%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH--- 66
           +            K+ +IG+   GKTS L +   ++F      T G++   K        
Sbjct: 30  RSKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGL 89

Query: 67  -----DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT 121
                 K      WD  GQE        +   +  ++L+ D     + ++   W+  I+ 
Sbjct: 90  ENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEK 146

Query: 122 YSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI 181
           Y    + VI+V NK D      I  ++      ++   F   S K+   V+ + + L   
Sbjct: 147 YG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSA 205

Query: 182 ICDKMS 187
           +    S
Sbjct: 206 VLHPDS 211

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  177 bits (452), Expect = 5e-57
 Identities = 34/174 (19%), Positives = 71/174 (40%), Gaps = 13/174 (7%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G++  GK+S + R+   S+      T    +K K +    +   + I + AG  
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQYK-KEMLVDGQTHLVLIREEAGAP 65

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW---DNAQVILVG--NKC 136
             +     +   A   I ++ + +E SF ++     Q+ +          + LVG  ++ 
Sbjct: 66  DAK-----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRI 120

Query: 137 DMEDERVISFERGKHL-AESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
                RV+   R + L A+     ++ET A   +NV  VF+ +   +     + 
Sbjct: 121 SASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQ 174

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  155 bits (393), Expect = 4e-48
 Identities = 55/173 (31%), Positives = 90/173 (52%), Gaps = 14/173 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K + +G+ +VGKT  L  Y  ++F + +V TV  +F    V      V L +WDTAGQE
Sbjct: 9   IKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVVVN-GATVNLGLWDTAGQE 67

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    YRGA  FIL + + ++ S+ ++   WI ++K Y+     ++LVG K D+ D
Sbjct: 68  DYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRD 126

Query: 141 ----------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
                        I+  +G+ L + +G   + E S+K   NVKGVF+  + ++
Sbjct: 127 DKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVV 179

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  154 bits (391), Expect = 2e-47
 Identities = 51/169 (30%), Positives = 87/169 (51%), Gaps = 16/169 (9%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++++G+   GKTS L  +AD +F  ++  TV   + +  +    K V L IWDTAGQ+
Sbjct: 35  VKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQD 93

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +   +Y  A   +L +DVT+  SF +I + W  ++  +      +I+VG K D+  
Sbjct: 94  DYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRK 152

Query: 141 ------------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                          +++ RG+ +A S+G V + E SA+ + NV  VF+
Sbjct: 153 DKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQ 201

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  151 bits (383), Expect = 2e-46
 Identities = 48/172 (27%), Positives = 82/172 (47%), Gaps = 16/172 (9%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
               KL+I+G+ + GKT  L  ++ D F   +V TV  +  +  +    K+V+L +WDTA
Sbjct: 23  AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTA 81

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCD 137
           GQE Y  +    Y      ++ + + + +S  +I + W  ++K +   N  +ILVGNK D
Sbjct: 82  GQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKD 140

Query: 138 MED------------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
           +              +  +  E G+ +A  +    + E SAK    V+ VFE
Sbjct: 141 LRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  149 bits (377), Expect = 2e-45
 Identities = 48/169 (28%), Positives = 83/169 (49%), Gaps = 16/169 (9%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 31  IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQE 89

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    Y     F++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D
Sbjct: 90  DYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRD 148

Query: 141 ------------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                          I++ +G  +A+ +G V++ E SA     +K VF+
Sbjct: 149 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD 197

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score =  148 bits (375), Expect = 5e-45
 Identities = 48/191 (25%), Positives = 89/191 (46%), Gaps = 17/191 (8%)

Query: 1   MAGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV 60
            +   E  + +  A Q      KL+++G+   GKT+ L   A D +   +V TV  ++  
Sbjct: 7   HSSGRENLYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-T 65

Query: 61  KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQI 119
             +   ++RV+L +WDT+G   Y  +    Y  +   +L +D++  E+  S    W T+I
Sbjct: 66  ACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEI 125

Query: 120 KTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLG-VEFFETSAK 166
             Y   + +V+L+G K D+              +  IS+E+G  +A+ LG   + E SA 
Sbjct: 126 LDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAF 184

Query: 167 DN-VNVKGVFE 176
            +  ++  +F 
Sbjct: 185 TSEKSIHSIFR 195

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  147 bits (373), Expect = 7e-45
 Identities = 47/168 (27%), Positives = 84/168 (50%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G+ + GKT  L  ++ D F   +V TV  ++ V  +    K+V+L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + V + +S  +I + W+ ++K +   N  +ILV NK D+   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSD 144

Query: 141 -----------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                      +  +  + G+ +A  +   ++ E SAK    V+ VFE
Sbjct: 145 EHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFE 192

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  145 bits (369), Expect = 4e-44
 Identities = 51/171 (29%), Positives = 91/171 (53%), Gaps = 12/171 (7%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K + +G+ +VGKT  L  Y  + F + ++ TV  D     V    + V L +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLGLWDTAGQE 68

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED 140
            Y  +    YRGA  F+L + + ++ S+ ++   W+ +++ ++  N  ++LVG K D+ D
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRD 127

Query: 141 E--------RVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
           +         VI+  +G+ L + +G   + E S+K   NVK VF+  + ++
Sbjct: 128 DKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVV 178

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  143 bits (363), Expect = 3e-43
 Identities = 42/173 (24%), Positives = 87/173 (50%), Gaps = 17/173 (9%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           +   K++++G+S  GKT+ L  +A D F   +V TV  ++         +R++L +WDT+
Sbjct: 26  NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEID-TQRIELSLWDTS 84

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCD 137
           G   Y  +    Y  +   ++ +D++  E+  S+   W  +I+ +   N +++LVG K D
Sbjct: 85  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSD 143

Query: 138 MED------------ERVISFERGKHLAESLG-VEFFETSAKDNVN-VKGVFE 176
           +              +  +S+++G ++A+ +G   + E SA  + N V+ +F 
Sbjct: 144 LRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH 196

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  140 bits (355), Expect = 3e-42
 Identities = 42/169 (24%), Positives = 86/169 (50%), Gaps = 17/169 (10%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+S  GKT+ L  +A D F   +V TV  ++         +R++L +WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEID-TQRIELSLWDTSGSPY 67

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y  +   ++ +D++  E+  S+   W  +I+ +   N +++LVG K D+   
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTD 126

Query: 141 -----------ERVISFERGKHLAESLG-VEFFETSAKDNVN-VKGVFE 176
                      +  +S+++G ++A+ +G   + E SA  + N V+ +F 
Sbjct: 127 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFH 175

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score =  139 bits (351), Expect = 1e-41
 Identities = 47/168 (27%), Positives = 82/168 (48%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE 
Sbjct: 7   KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQED 65

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           Y  +    Y      ++ + + +  SF +++  W  +++ +   N  +ILVG K D+ D 
Sbjct: 66  YDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDD 124

Query: 141 -----------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                         I++ +G  +A+ +G V++ E SA     +K VF+
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFD 172

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  138 bits (350), Expect = 2e-41
 Identities = 46/168 (27%), Positives = 83/168 (49%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K +++G+ +VGKTS +  Y  + + + ++ T   D     V    + V+LQ+ DTAGQ+ 
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDE 80

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED- 140
           +  +    Y     F+L + V +  SF ++ + W+ +I+ +    A +ILVG + D+ + 
Sbjct: 81  FDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLRED 139

Query: 141 -----------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
                      E+ +  E  K LAE +    + E SA    N+K VF+
Sbjct: 140 VKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFD 187

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  133 bits (337), Expect = 1e-39
 Identities = 53/172 (30%), Positives = 89/172 (51%), Gaps = 16/172 (9%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
             M K +++G+ +VGKT  L  YA+D+F   +V TV  D    +V    K+  L ++DTA
Sbjct: 16  ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTA 74

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCD 137
           GQE Y  +    Y     F++ + V N  SF ++++ W+ ++K Y+  N   +L+G + D
Sbjct: 75  GQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQID 133

Query: 138 MED------------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVFE 176
           + D            E+ I  E+G+ LA+ +G   + E SA     +K VF+
Sbjct: 134 LRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFD 185

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score =  129 bits (326), Expect = 3e-37
 Identities = 43/220 (19%), Positives = 67/220 (30%), Gaps = 66/220 (30%)

Query: 28  GNSSVGKTSFLFRY---ADDSFTSAFVSTVG-IDFKVKTVFRHD--------------KR 69
           G   +GK+    R+   + D F     S +   DF  + V                    
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 70  VKLQIW-------DTAGQERYRTITTAYYRGAM--------------------------- 95
            K+ I        D   Q    T    Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 96  ----------GFILMYDVTNEE--SFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDER 142
                     GF+L  DV+     +F     +++ +          +++V  KCD   ER
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 143 VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            I       L++   ++  ETSA+ NVNV   F  LV +I
Sbjct: 215 YIRDAHTFALSKK-NLQVVETSARSNVNVDLAFSTLVQLI 253

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score =  108 bits (270), Expect = 3e-28
 Identities = 48/181 (26%), Positives = 85/181 (46%), Gaps = 16/181 (8%)

Query: 10  QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR 69
             +  D+    + K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K 
Sbjct: 144 TAENIDEAAKELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKP 202

Query: 70  VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQ 128
           V L +WDTAG E Y  +    Y     F++ + + +  SF  ++  W  +++ +   N  
Sbjct: 203 VNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTP 261

Query: 129 VILVGNKCDMED------------ERVISFERGKHLAESLG-VEFFETSAKDNVNVKGVF 175
           +ILVG K D+ D               I++ +G  +A+ +G V++ E SA     +K VF
Sbjct: 262 IILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

Query: 176 E 176
           +
Sbjct: 322 D 322

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 87.1 bits (216), Expect = 1e-21
 Identities = 30/187 (16%), Positives = 61/187 (32%), Gaps = 25/187 (13%)

Query: 22  FKLLIIGNSSVGKTSFL----------FRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRV 70
           FK++  G    GKT+ L           +    S  +    T+  DF    +      + 
Sbjct: 15  FKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKT 74

Query: 71  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNE---ESFTSIQDWITQIKTYSWDNA 127
           +  ++   GQ  Y        RG  G + + D        +  S+++    +  Y     
Sbjct: 75  RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLD 134

Query: 128 QVILV--GNKCDMEDERVISFERGKHLAESLG----VEFFETSAKDNVNVKGVFERLVDI 181
            V +V   NK D+ D   +  E    +   +         E  A +   V    + +  +
Sbjct: 135 DVPIVIQVNKRDLPD--ALPVEM---VRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRL 189

Query: 182 ICDKMSE 188
           +  +++ 
Sbjct: 190 VLARVAG 196

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 71.5 bits (175), Expect = 1e-15
 Identities = 34/165 (20%), Positives = 63/165 (38%), Gaps = 23/165 (13%)

Query: 23  KLLIIGNSSVGKTS---FLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           ++L++G    GK+S    +F     + T    ST  I    K    +   V  QIWD  G
Sbjct: 22  RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIY---KDDISNSSFVNFQIWDFPG 78

Query: 80  QERYRTIT---TAYYRGAMGFILMYDVTNE--ESFTSIQDWITQIKTYSWDNAQVILVGN 134
           Q  +   T      +RG    I + D  ++  E+ T +   +++    +  +    +  +
Sbjct: 79  QMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIH 137

Query: 135 KCDM--EDERVISFER---------GKHLAESLGVEFFETSAKDN 168
           K D   +D ++ +                 E L + F+ TS  D+
Sbjct: 138 KVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDH 182

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 72.7 bits (178), Expect = 2e-15
 Identities = 38/186 (20%), Positives = 76/186 (40%), Gaps = 25/186 (13%)

Query: 23  KLLIIGNSSVGKTS---FLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           KLL++G S  GK+S    +F       T    +T+ ++       R    + L +WD  G
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH---LRFLGNMTLNLWDCGG 61

Query: 80  QERY-----RTITTAYYRGAMGFILMYDVTNEESFTSIQDW---ITQIKTYSWDNAQVIL 131
           Q+ +            ++     I ++DV + E    I+ +   + Q++ YS  +A++ +
Sbjct: 62  QDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-PDAKIFV 120

Query: 132 VGNKCDM--EDERVISFERGKHLAESL-------GVEFFETSAKDNVNVKGVFERLVDII 182
           + +K D+   D+R   F+                 +  F TS  D  ++   + ++V  +
Sbjct: 121 LLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDE-SLYKAWSQIVCSL 179

Query: 183 CDKMSE 188
              MS 
Sbjct: 180 IPNMSN 185

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 62.6 bits (153), Expect = 2e-12
 Identities = 36/170 (21%), Positives = 73/170 (42%), Gaps = 18/170 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G    GKT+F+   A   F    + TVG  F ++ + +    V +++WD  GQ 
Sbjct: 23  MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITK--GNVTIKLWDIGGQP 78

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           R+R++   Y RG    + M D  ++E   + ++ +  +          V+++GNK D+  
Sbjct: 79  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 138

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDII 182
              +  +    L E + +          +  S K+  N+    + L+   
Sbjct: 139 --ALDEKE---LIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 183

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 61.9 bits (151), Expect = 3e-12
 Identities = 36/174 (20%), Positives = 72/174 (41%), Gaps = 19/174 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +LL++G  + GKT+ L ++  +   +    T+G  F +KT+    +  KL IWD  GQ+
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTI-SPTLG--FNIKTL--EHRGFKLNIWDVGGQK 73

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R+    Y+    G I + D  + +     Q  +  +        A +++  NK D+  
Sbjct: 74  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 133

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDIICDKM 186
               +      + E+L ++            SA    ++    + L+D I  ++
Sbjct: 134 ALSCN-----AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSRV 182

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 61.9 bits (151), Expect = 3e-12
 Identities = 37/168 (22%), Positives = 70/168 (41%), Gaps = 9/168 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R       +    T+G  F V+T+    K +KL +WD  GQ 
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTT-KPTIG--FNVETL--SYKNLKLNVWDLGGQT 73

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D T+++  ++    +  + +     +A +++  NK D   
Sbjct: 74  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 133

Query: 141 ---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
                 +S E      +        +SA     +    + L+D+I ++
Sbjct: 134 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 61.0 bits (149), Expect = 4e-12
 Identities = 42/173 (24%), Positives = 72/173 (41%), Gaps = 19/173 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R       +  + T+G  F V+TV    K +K Q+WD  G  
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVVTT-IPTIG--FNVETV--TYKNLKFQVWDLGGLT 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D  + +     +  +  + +      A +++  NK DME 
Sbjct: 63  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 122

Query: 141 ERVISFERGKHLAESLG--------VEFFETSAKDNVNVKGVFERLVDIICDK 185
              ++      +A SLG         + F+TSA     +    E LV+ +  +
Sbjct: 123 --AMTSSE---MANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 170

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 61.5 bits (150), Expect = 5e-12
 Identities = 37/170 (21%), Positives = 69/170 (40%), Gaps = 19/170 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKTS L+R       +  V TVG    ++T+    K +  ++WD  GQ 
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTT-VPTVG--VNLETL--QYKNISFEVWDLGGQT 77

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
             R     Y+      I + D T+ +     +  +  +         ++L+  NK D+ D
Sbjct: 78  GVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPD 137

Query: 141 ERVISFERGKHLAESLG--------VEFFETSAKDNVNVKGVFERLVDII 182
               S      +AE LG            ++S+K    +    + LV+ +
Sbjct: 138 --AASEAE---IAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERL 182

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 61.1 bits (149), Expect = 7e-12
 Identities = 30/178 (16%), Positives = 70/178 (39%), Gaps = 21/178 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRYA-DDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
             +L +G  + GKT+ + +    ++ +   + T+G  F ++        +   ++D +GQ
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKF--KSSSLSFTVFDMSGQ 77

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILV-GNKCD 137
            RYR +   YY+     I + D ++       ++ +  +  +         IL   NK D
Sbjct: 78  GRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMD 137

Query: 138 MEDERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDIICDKMS 187
           + D   ++  +   +++ L +E           + A     ++   + L D I    +
Sbjct: 138 LRD--AVTSVK---VSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTVKT 190

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 61.2 bits (149), Expect = 7e-12
 Identities = 40/182 (21%), Positives = 75/182 (41%), Gaps = 24/182 (13%)

Query: 18  FDYMF-----KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKL 72
           F  +F     ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +  
Sbjct: 21  FSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNICF 75

Query: 73  QIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV 132
            +WD  GQ++ R +   Y++   G I + D  + E      D + ++         V+LV
Sbjct: 76  TVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLV 135

Query: 133 -GNKCDMEDERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDIIC 183
             NK DM +   +S      L + LG++           T A     +    + L   + 
Sbjct: 136 FANKQDMPNAMPVS-----ELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELS 190

Query: 184 DK 185
            +
Sbjct: 191 KR 192

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 59.9 bits (146), Expect = 1e-11
 Identities = 34/170 (20%), Positives = 65/170 (38%), Gaps = 19/170 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L + A +  +     T G  F +K+V    +  KL +WD  GQ 
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHI-TPTQG--FNIKSV--QSQGFKLNVWDIGGQR 71

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
           + R    +Y+      I + D  + + F      +T++      +   +L+  NK D+  
Sbjct: 72  KIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT 131

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDII 182
                      +AE L +             SA     V+     +   +
Sbjct: 132 --AAPASE---IAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 60.0 bits (146), Expect = 1e-11
 Identities = 29/177 (16%), Positives = 72/177 (40%), Gaps = 19/177 (10%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++I+G  + GKT+ L++++ +        T+G    V+ +       +  +WD  GQE
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEI--VINNTRFLMWDIGGQE 71

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R+    YY      I++ D T+ E  +  ++ + ++        A +++  NK D+++
Sbjct: 72  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 131

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDIICDKMSES 189
              ++      +++ L +              A     +    E ++  +  ++   
Sbjct: 132 CMTVA-----EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLEHH 183

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 58.7 bits (143), Expect = 3e-11
 Identities = 32/172 (18%), Positives = 74/172 (43%), Gaps = 19/172 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVWDVGGQDK 56

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDE 141
            R +   Y++   G I + D  + E     ++ + ++       +A +++  NK D+ + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 142 RVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDIICDK 185
              +      + + LG+            T A     +    + L + + ++
Sbjct: 117 MNAA-----EITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 58.0 bits (141), Expect = 8e-11
 Identities = 29/170 (17%), Positives = 70/170 (41%), Gaps = 19/170 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++I+G  + GKT+ L++++ +        T+G    V+ +       +  +WD  GQE
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMNEVVHT-SPTIG--SNVEEI--VINNTRFLMWDIGGQE 76

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R+    YY      I++ D T+ E  +  ++ + ++        A +++  NK D+++
Sbjct: 77  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 136

Query: 141 ERVISFERGKHLAESLGVE--------FFETSAKDNVNVKGVFERLVDII 182
              ++      +++ L +              A     +    E ++  +
Sbjct: 137 CMTVA-----EISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 181

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 53.8 bits (130), Expect = 3e-09
 Identities = 25/119 (21%), Positives = 45/119 (37%), Gaps = 6/119 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+ +G  + GKT+ L    DD      V T+      + +      +    +D  G  +
Sbjct: 27  KLVFLGLDNAGKTTLLHMLKDDRLGQH-VPTLH--PTSEELTI--AGMTFTTFDLGGHIQ 81

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
            R +   Y     G + + D  + E     ++ +  + T        IL+ GNK D  +
Sbjct: 82  ARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE 140

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 54.0 bits (130), Expect = 3e-09
 Identities = 19/124 (15%), Positives = 45/124 (36%), Gaps = 9/124 (7%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQE 81
            +L +G    GKT    R     +     +++            +++   L + D  G E
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRDT-QTSIT--DSSAIYKVNNNRGNSLTLIDLPGHE 65

Query: 82  RYR-TITTAYYRGAMGFILMYDVTN-EESFTSIQDWITQI--KTYSWDNAQVILV-GNKC 136
             R  +   +   A   + + D    +     + +++ Q+   + +  N+  +L+  NK 
Sbjct: 66  SLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQ 125

Query: 137 DMED 140
           D+  
Sbjct: 126 DIAM 129

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 54.3 bits (130), Expect = 5e-09
 Identities = 27/164 (16%), Positives = 60/164 (36%), Gaps = 25/164 (15%)

Query: 24  LLIIGNSSVGKTS---FLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +L++G    GK+S    +F       T    ST     +  +       + L + +  GQ
Sbjct: 2   VLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHFSTL-----IDLAVMELPGQ 56

Query: 81  ERYR---TITTAYYRGAMGFILMYDVTN--EESFTSIQDWITQIKTYSWDNAQVILVGNK 135
             Y      +   ++     + + D  +    + T++   I      +  +  + ++ +K
Sbjct: 57  LNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHK 115

Query: 136 CD-------MEDERVISFERGKHLA----ESLGVEFFETSAKDN 168
            D       ++ +R I    G+ L     + + V F+ TS  D+
Sbjct: 116 VDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDH 159

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 51.8 bits (125), Expect = 1e-08
 Identities = 23/119 (19%), Positives = 45/119 (37%), Gaps = 6/119 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KLL +G  + GKT+ L    +D   +    T       + +      +K   +D  G  +
Sbjct: 25  KLLFLGLDNAGKTTLLHMLKNDRLATL-QPTWH--PTSEEL--AIGNIKFTTFDLGGHIQ 79

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILV-GNKCDMED 140
            R +   Y+    G + + D  + E F   +  +  +   +       ++ GNK D  +
Sbjct: 80  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN 138

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 50.2 bits (120), Expect = 1e-07
 Identities = 37/174 (21%), Positives = 70/174 (40%), Gaps = 24/174 (13%)

Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVF---RHDKRVKLQIWDTAG- 79
           ++I G+ +VGK++ L        T+A        F  + +      D   + QI DT G 
Sbjct: 170 VVIAGHPNVGKSTLLKA-----LTTAKPEIASYPFTTRGINVGQFEDGYFRYQIIDTPGL 224

Query: 80  -----QER----YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQ 128
                 ER     + I    Y G +  I ++D + E     +++ I   +     + +  
Sbjct: 225 LDRPISERNEIEKQAILALRYLGNL-IIYIFDPS-EHCGFPLEEQIHLFEEVHGEFKDLP 282

Query: 129 VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            ++V NK D+ DE  I  +R +   +  G+   + SA     +  V E ++  +
Sbjct: 283 FLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGIDLVKEEIIKTL 334

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 48.2 bits (115), Expect = 2e-07
 Identities = 23/127 (18%), Positives = 45/127 (35%), Gaps = 15/127 (11%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
            ++I G  + GKTS L     DS       TV     +           + + D  G  +
Sbjct: 50  SIIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADY--DGSGVTLVDFPGHVK 103

Query: 83  YRTITTAYYRGAM----GFILMYD-VTNEESFTSI----QDWITQIKTYSWDNAQVILVG 133
            R   + Y +       G I M D   + +  T+      D ++  ++   +   +++  
Sbjct: 104 LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 163

Query: 134 NKCDMED 140
           NK ++  
Sbjct: 164 NKSELFT 170

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 48.2 bits (115), Expect = 4e-07
 Identities = 23/126 (18%), Positives = 45/126 (35%), Gaps = 15/126 (11%)

Query: 24  LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY 83
           ++I G  + GKTS L     DS       TV     +           + + D  G  + 
Sbjct: 15  IIIAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLSAADY--DGSGVTLVDFPGHVKL 68

Query: 84  RTITTAYY----RGAMGFILMYD-VTNEESFTSI----QDWITQIKTYSWDNAQVILVGN 134
           R   + Y     +   G I M D   + +  T+      D ++  ++   +   +++  N
Sbjct: 69  RYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN 128

Query: 135 KCDMED 140
           K ++  
Sbjct: 129 KSELFT 134

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum} Length = 228

 Score = 46.3 bits (110), Expect = 2e-06
 Identities = 39/209 (18%), Positives = 75/209 (35%), Gaps = 37/209 (17%)

Query: 24  LLIIGNSSVGKTSFLFRY-------ADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           +++ G  +VGK+SF+             SFT     T  +   V        +   QI D
Sbjct: 32  IILSGAPNVGKSSFMNIVSRANVDVQSYSFT-----TKNL--YVGHFDHKLNKY--QIID 82

Query: 77  TAG-----------QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD 125
           T G            E       A+  G + FI+  D++ E+   +I++ I    +    
Sbjct: 83  TPGLLDRAFENRNTIEMTTITALAHINGVILFII--DIS-EQCGLTIKEQINLFYSIKSV 139

Query: 126 --NAQVILVGNKCDMEDERVISFERGKHLAESL-----GVEFFETSAKDNVNVKGVFERL 178
             N  +++  NK D  +   +S +    + + L      ++F   S    V V+      
Sbjct: 140 FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITA 199

Query: 179 VDIICDKMSESLDSDPNLVAGPKGTRLTE 207
            +++ +  +ES+  D   +   K      
Sbjct: 200 CELLKNDQAESILLDQEQLLNTKLGETKN 228

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 43.3 bits (102), Expect = 2e-05
 Identities = 23/92 (25%), Positives = 44/92 (47%), Gaps = 5/92 (5%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
                  ++L++G  + GKT+ L++       +  + T+G  F V+TV    K +   +W
Sbjct: 160 LFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIG--FNVETV--EYKNISFTVW 214

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEE 107
           D  GQ++ R +   Y++   G I + D  + E
Sbjct: 215 DVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRE 246

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A* Length = 413

 Score = 41.2 bits (96), Expect = 1e-04
 Identities = 26/177 (14%), Positives = 58/177 (32%), Gaps = 19/177 (10%)

Query: 11  KDAADQNFDYMFKLLIIGNSSVGKTSF---LFRYADDSFTSAFVSTVGIDFKVKTVFRHD 67
            DA  +    +  + + G +  GK+SF   L    ++   +A    V +  +    ++H 
Sbjct: 59  SDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMER-HPYKHP 117

Query: 68  KRVKLQIWDTAGQERYRTITTAYYRGAMG-----FILMYDVTNEESFTSIQDWITQIKTY 122
               +  WD  G          Y           FI++     +++   I   I+ +K  
Sbjct: 118 NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKK- 176

Query: 123 SWDNAQVILVGNKCDM----EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF 175
                +   V  K D     E +        + + + + +    T  ++ +    +F
Sbjct: 177 -----EFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIF 228

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	221
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.98
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.98
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.98
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.96
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.95
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.95
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.94
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.94
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.93
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.93
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.93
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.93
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.93
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.92
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.91
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.91
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.91
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.9
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.9
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.9
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.9
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.9
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.89
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.88
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.88
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.88
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.88
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.88
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.88
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.88
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.88
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.87
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.87
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.87
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.87
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.87
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.86
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.86
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.86
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.86
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.86
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.86
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.85
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.85
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.85
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.85
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.85
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.85
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.85
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.85
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.84
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.84
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.84
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.83
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.83
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.83
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.82
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.82
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.81
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.8
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.79
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.79
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.78
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.78
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.77
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.77
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.76
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.75
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.75
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.75
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.75
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.74
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.74
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.74
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.74
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.71
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.69
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.69
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.68
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.67
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.66
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.64
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.62
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.61
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.6
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.59
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.57
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.54
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.54
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.53
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.52
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.51
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.46
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.43
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.41
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.35
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.33
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.3
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.99
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.97
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.93
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.92
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.9
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.87
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.83
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.82
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.78
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.59
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.56
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.49
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.38
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.37
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.35
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.24
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.24
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.18
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.07
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.04
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	98.01
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	97.88
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.63
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.43
2xxa_A	433	Signal recognition particle protein; protein trans	97.34
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.29
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.27
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.25
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.2
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.17
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.16
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.16
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.13
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.12
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.12
3cwq_A	209	Para family chromosome partitioning protein; alpha	97.12
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.08
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.06
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.06
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.06
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.0
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.0
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.97
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.95
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.95
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.94
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.92
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.91
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.91
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.9
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.89
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.88
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.88
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.88
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.88
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.87
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.87
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.87
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.86
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.85
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.84
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.84
1g6h_A	257	High-affinity branched-chain amino acid transport	96.84
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.83
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.83
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.82
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.82
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.81
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.81
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.79
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.78
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.78
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.78
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.77
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.77
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.76
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.76
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.76
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.76
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.76
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.75
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.75
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.75
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.75
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.74
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.73
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.72
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.72
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.71
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.71
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.7
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.7
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.7
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.69
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.69
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.68
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.68
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.68
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.66
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.66
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.66
3co5_A	143	Putative two-component system transcriptional RES	96.65
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.63
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.62
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.61
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.61
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.59
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.59
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.58
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.58
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.58
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.57
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.57
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.56
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.55
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.54
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.54
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.54
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.54
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.53
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.52
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.52
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.51
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.5
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.5
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.49
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.48
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.48
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.48
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.47
1via_A	175	Shikimate kinase; structural genomics, transferase	96.46
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.46
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.45
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.45
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.45
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.45
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.45
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.45
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.45
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.44
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.44
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.43
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.41
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.4
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.39
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.39
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.39
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.37
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.37
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.36
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.35
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.35
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.35
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.33
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.33
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.32
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.32
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.3
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.3
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.29
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.28
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.28
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.28
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.28
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.28
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.28
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.27
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.27
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.27
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.26
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.26
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.26
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.24
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.24
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.23
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.23
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.23
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.23
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.23
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.21
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.2
2og2_A	359	Putative signal recognition particle receptor; nuc	96.19
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.19
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.19
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.17
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.14
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.13
3uc9_A	233	Increased recombination centers protein 6; rossman	96.12
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.11
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.08
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.07
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.07
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.07
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.05
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.04
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.04
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.03
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.03
3bos_A	242	Putative DNA replication factor; P-loop containing	96.01
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.01
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.0
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.0
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.99
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.99
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.98
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.97
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.96
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	95.94
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.93
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.89
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.88
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	95.85
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.83
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.78
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.77
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.76
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.76
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.75
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.74
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.72
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.72
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.72
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.69
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.69
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.67
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.66
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.61
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.61
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.59
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.58
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.58
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.56
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.54
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	95.52
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.51
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.51
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.51
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.49
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.46
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.44
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	95.43
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.43
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.43
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.43
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.42
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.42
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.4
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.37
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.36
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.36
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.36
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.35
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.34
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.33
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.3
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.28
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.28
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.27
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.25
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.23
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.23
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.22
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.18
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.13
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.06
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.06
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	95.03
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.99
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.99
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.98
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.95
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.93
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	94.93
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.88
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.88
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	94.86
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.86
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	94.85
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	94.83
2qgz_A	308	Helicase loader, putative primosome component; str	94.82
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.81
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.8
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.8
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	94.78
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.77
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.75
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.75
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	94.74

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.4e-41  Score=257.53  Aligned_cols=167  Identities=41%  Similarity=0.723  Sum_probs=146.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.|||+|+|.+|||||||+++|+.+.|...+.+|.+.++..+.+..++..+.+.||||+|++.|..++..+++.++++++
T Consensus        12 k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~il   91 (216)
T 4dkx_A           12 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVV   91 (216)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEE
T ss_pred             CcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEE
Confidence            56999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |||++++.+|+++..|+..+......+.|++||+||+|+.+.+.++.++.+.+++.+++.|++|||++|.||+++|+.|+
T Consensus        92 v~di~~~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~  171 (216)
T 4dkx_A           92 VYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA  171 (216)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EeecchhHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHH
Confidence            99999999999999999999877777899999999999988889999999999999999999999999999999999999


Q ss_pred             HHHHHhh
Q psy2300         180 DIICDKM  186 (221)
Q Consensus       180 ~~~~~~~  186 (221)
                      +.+....
T Consensus       172 ~~i~~~~  178 (216)
T 4dkx_A          172 AALPGME  178 (216)
T ss_dssp             HHC----
T ss_pred             HHHHhhh
Confidence            8876543

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=9.5e-37  Score=229.61  Aligned_cols=173  Identities=49%  Similarity=0.913  Sum_probs=158.4

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (206)
T 2bcg_Y            4 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   83 (206)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCE
Confidence            35678999999999999999999999999888888999988888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        84 vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  163 (206)
T 2bcg_Y           84 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  163 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999877667899999999999988777888888899999999999999999999999999


Q ss_pred             HHHHHHHHhhccc
Q psy2300         177 RLVDIICDKMSES  189 (221)
Q Consensus       177 ~i~~~~~~~~~~~  189 (221)
                      +|.+.+.+.....
T Consensus       164 ~l~~~i~~~~~~~  176 (206)
T 2bcg_Y          164 TMARQIKESMSQQ  176 (206)
T ss_dssp             HHHHHHHHHCCHH
T ss_pred             HHHHHHHHHHhhc
Confidence            9999998775443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=4.8e-36  Score=228.64  Aligned_cols=172  Identities=41%  Similarity=0.745  Sum_probs=146.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.++|+|+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|+
T Consensus         9 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   88 (223)
T 3cpj_B            9 DYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVG   88 (223)
T ss_dssp             -CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCE
T ss_pred             CCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCE
Confidence            35678999999999999999999999999887888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||++++.++..+..|+..+......+.|++||+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        89 vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  168 (223)
T 3cpj_B           89 ALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFE  168 (223)
T ss_dssp             EEEEEC-CCHHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999877666899999999999977677788888899999999999999999999999999


Q ss_pred             HHHHHHHHhhcc
Q psy2300         177 RLVDIICDKMSE  188 (221)
Q Consensus       177 ~i~~~~~~~~~~  188 (221)
                      +|.+.+.++...
T Consensus       169 ~l~~~i~~~~~~  180 (223)
T 3cpj_B          169 ELINTIYQKVSK  180 (223)
T ss_dssp             HHHHHHTTCC--
T ss_pred             HHHHHHHHHhhh
Confidence            999998876543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=1.5e-35  Score=220.52  Aligned_cols=184  Identities=37%  Similarity=0.665  Sum_probs=158.2

Q ss_pred             cCcchhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300           4 VGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      ....+|--.+.+....+.+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~   83 (191)
T 2a5j_A            4 SHHHHHHSSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESF   83 (191)
T ss_dssp             ------CCCCCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGT
T ss_pred             cccccccccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhh
Confidence            33445556666777788999999999999999999999999987777888888888888888888899999999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEE
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFET  163 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  163 (221)
                      ..++..++..+|++++|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++
T Consensus        84 ~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~  163 (191)
T 2a5j_A           84 RSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMET  163 (191)
T ss_dssp             SCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEE
T ss_pred             hhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEE
Confidence            99999999999999999999999999999999999987766789999999999997767778888999999999999999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         164 SAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      ||++|.|++++|++|.+.+.++..
T Consensus       164 Sa~~~~gi~~l~~~l~~~i~~~~~  187 (191)
T 2a5j_A          164 SAKTACNVEEAFINTAKEIYRKIQ  187 (191)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             eCCCCCCHHHHHHHHHHHHHHHHH
Confidence            999999999999999999987653

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=2.7e-35  Score=221.11  Aligned_cols=175  Identities=85%  Similarity=1.338  Sum_probs=159.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            45688999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|+
T Consensus        84 ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  163 (203)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999887666899999999999988777888889999999999999999999999999999


Q ss_pred             HHHHHHHHhhccccC
Q psy2300         177 RLVDIICDKMSESLD  191 (221)
Q Consensus       177 ~i~~~~~~~~~~~~~  191 (221)
                      +|.+.+.++..+...
T Consensus       164 ~l~~~i~~~~~~~~~  178 (203)
T 1zbd_A          164 RLVDVICEKMSESLD  178 (203)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHhhcc
Confidence            999999888755543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=5.5e-35  Score=218.02  Aligned_cols=174  Identities=48%  Similarity=0.943  Sum_probs=159.8

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ....++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+
T Consensus        10 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   89 (196)
T 3tkl_A           10 NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGA   89 (196)
T ss_dssp             -CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTC
T ss_pred             CcccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhC
Confidence            34456889999999999999999999999998888889999899989998888889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      |++++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++
T Consensus        90 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  169 (196)
T 3tkl_A           90 HGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQS  169 (196)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHH
Confidence            99999999999999999999999998887778999999999999888888888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcc
Q psy2300         175 FERLVDIICDKMSE  188 (221)
Q Consensus       175 ~~~i~~~~~~~~~~  188 (221)
                      |++|.+.+.++...
T Consensus       170 ~~~l~~~i~~~~~~  183 (196)
T 3tkl_A          170 FMTMAAEIKKRMGP  183 (196)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887653

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.1e-35  Score=221.70  Aligned_cols=180  Identities=39%  Similarity=0.705  Sum_probs=157.8

Q ss_pred             hhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy2300           8 KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus         8 ~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      .|-..+...++++.+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+|||+|++.+..++
T Consensus        13 ~~~~~~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   92 (201)
T 2ew1_A           13 GLVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSIT   92 (201)
T ss_dssp             ---------CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHH
T ss_pred             cccCCCCccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            45556666778899999999999999999999999999888888898888888888888888999999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      ..+++.+|++++|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++
T Consensus        93 ~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~  172 (201)
T 2ew1_A           93 QSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKE  172 (201)
T ss_dssp             GGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTT
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCC
Confidence            99999999999999999999999999999999887667899999999999977677788888889988999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhc
Q psy2300         168 NVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~~  187 (221)
                      |.|++++|++|.+.+.++..
T Consensus       173 g~gv~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          173 SDNVEKLFLDLACRLISEAR  192 (201)
T ss_dssp             CTTHHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999887653

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=1.6e-35  Score=218.64  Aligned_cols=173  Identities=55%  Similarity=0.965  Sum_probs=129.1

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .++.++|+|+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            46789999999999999999999999988777888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~  164 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFT  164 (183)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998776668999999999999877778888899999999999999999999999999999


Q ss_pred             HHHHHHHhhcccc
Q psy2300         178 LVDIICDKMSESL  190 (221)
Q Consensus       178 i~~~~~~~~~~~~  190 (221)
                      |.+.+.++..+..
T Consensus       165 l~~~i~~~~~~~~  177 (183)
T 2fu5_C          165 LARDIKAKMDKNW  177 (183)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhccc
Confidence            9999987765443

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=3e-35  Score=220.81  Aligned_cols=178  Identities=43%  Similarity=0.728  Sum_probs=147.7

Q ss_pred             hhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchh
Q psy2300          10 QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTA   89 (221)
Q Consensus        10 ~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~   89 (221)
                      -....+++.++.++|+|+|.+|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+..++..
T Consensus        18 ~~~~~~~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~   97 (201)
T 2hup_A           18 GSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQS   97 (201)
T ss_dssp             --------CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHH
T ss_pred             CCCCcccccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHH
Confidence            33445566778999999999999999999999999987778888888888888888888899999999999999999999


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDN  168 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~  168 (221)
                      +++.+|++|+|||++++.+++.+..|+..+......+.|++||+||+|+.+.+.+..++...++...++ +++++||++|
T Consensus        98 ~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g  177 (201)
T 2hup_A           98 YYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDS  177 (201)
T ss_dssp             HHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTT
T ss_pred             HHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCC
Confidence            999999999999999999999999999998877667899999999999987677888889999999999 9999999999


Q ss_pred             CCHHHHHHHHHHHHHHhhc
Q psy2300         169 VNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~~~~  187 (221)
                      .|++++|++|.+.+.++..
T Consensus       178 ~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          178 SNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             BSHHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHhcc
Confidence            9999999999999887653

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=9.5e-35  Score=215.85  Aligned_cols=175  Identities=80%  Similarity=1.293  Sum_probs=158.4

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      .......++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++
T Consensus        13 ~~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   92 (189)
T 2gf9_A           13 GLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYY   92 (189)
T ss_dssp             -CCCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGG
T ss_pred             CCCCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhc
Confidence            34455567889999999999999999999999998888888888888888888888889999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      ..+|++++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++.+.++...+++++++||++|.|+
T Consensus        93 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  172 (189)
T 2gf9_A           93 RGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINV  172 (189)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSH
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCH
Confidence            99999999999999999999999999998876668999999999999777777788889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy2300         172 KGVFERLVDIICDKM  186 (221)
Q Consensus       172 ~~l~~~i~~~~~~~~  186 (221)
                      +++|++|.+.+.++.
T Consensus       173 ~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          173 KQVFERLVDVICEKM  187 (189)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999987764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=9.9e-35  Score=216.38  Aligned_cols=180  Identities=38%  Similarity=0.687  Sum_probs=157.5

Q ss_pred             hhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy2300           8 KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus         8 ~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      .|-+++..+.+++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||.+.+..++
T Consensus        12 ~~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   91 (193)
T 2oil_A           12 SGLVPRGSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAIT   91 (193)
T ss_dssp             --------CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTH
T ss_pred             cccccccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhh
Confidence            34555666777889999999999999999999999999887788888888888888888888999999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      ..++..+|++|+|+|++++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||++
T Consensus        92 ~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  171 (193)
T 2oil_A           92 SAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALD  171 (193)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTT
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCC
Confidence            99999999999999999999999999999998776667899999999999977667778888899999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhc
Q psy2300         168 NVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~~  187 (221)
                      |.|++++|++|.+.+.++..
T Consensus       172 ~~gi~~l~~~l~~~i~~~~~  191 (193)
T 2oil_A          172 STNVELAFETVLKEIFAKVS  191 (193)
T ss_dssp             CTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhh
Confidence            99999999999999887653

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=2.2e-34  Score=211.84  Aligned_cols=173  Identities=47%  Similarity=0.878  Sum_probs=155.1

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +.++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   84 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHG   84 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCE
Confidence            45688999999999999999999999999888888899988888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|+|++++.++..+..|+..+.... .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFN  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            999999999999999999999987654 5799999999999988777888889999999999999999999999999999


Q ss_pred             HHHHHHHHhhcccc
Q psy2300         177 RLVDIICDKMSESL  190 (221)
Q Consensus       177 ~i~~~~~~~~~~~~  190 (221)
                      +|.+.+.+......
T Consensus       164 ~l~~~~~~~~~~~~  177 (181)
T 3tw8_B          164 CITELVLRAKKDNL  177 (181)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhhhhh
Confidence            99999987765443

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=6.4e-35  Score=218.82  Aligned_cols=180  Identities=37%  Similarity=0.649  Sum_probs=146.2

Q ss_pred             hhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy2300           8 KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus         8 ~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      .|.++.....++..++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++
T Consensus        12 ~~~~~~~~~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~   91 (200)
T 2o52_A           12 SGLVPRGSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVT   91 (200)
T ss_dssp             ----------CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCC
T ss_pred             cccccccccccCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHH
Confidence            45555666677889999999999999999999999998887888888888888888888888999999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      ..++..+|++|+|+|++++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||++
T Consensus        92 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~  171 (200)
T 2o52_A           92 RSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALT  171 (200)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTT
T ss_pred             HHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCC
Confidence            99999999999999999999999999999998777667899999999999977677778888899999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhhc
Q psy2300         168 NVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~~  187 (221)
                      |.|++++|++|.+.+.++..
T Consensus       172 g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          172 GENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             CTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999987764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=4.6e-36  Score=223.36  Aligned_cols=178  Identities=81%  Similarity=1.277  Sum_probs=161.5

Q ss_pred             hhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchh
Q psy2300          10 QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTA   89 (221)
Q Consensus        10 ~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~   89 (221)
                      .....+..+++.+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||++|++.+..++..
T Consensus        12 ~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   91 (191)
T 3dz8_A           12 ENLYFQGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTA   91 (191)
T ss_dssp             CEEEETTEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHH
T ss_pred             hccccccccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHH
Confidence            33444556678999999999999999999999999988888888888888888888888889999999999999999999


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      +++.+|++++|||++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.
T Consensus        92 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  171 (191)
T 3dz8_A           92 YYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENI  171 (191)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTB
T ss_pred             HHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCC
Confidence            99999999999999999999999999999988776789999999999998777888888999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhc
Q psy2300         170 NVKGVFERLVDIICDKMS  187 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~~  187 (221)
                      |++++|++|.+.+.++..
T Consensus       172 gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          172 SVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             SHHHHHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHHHHhcc
Confidence            999999999999988764

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=1.6e-34  Score=217.14  Aligned_cols=169  Identities=35%  Similarity=0.555  Sum_probs=149.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +....++|+|+|.+|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|+
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   88 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEG   88 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCE
Confidence            345689999999999999999999999988777777776554 3556677888899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +++|||++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  168 (206)
T 2bov_A           89 FLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF  168 (206)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Confidence            999999999999999999999887765 3589999999999998777788888999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy2300         176 ERLVDIICDKM  186 (221)
Q Consensus       176 ~~i~~~~~~~~  186 (221)
                      ++|++.+.++.
T Consensus       169 ~~l~~~i~~~~  179 (206)
T 2bov_A          169 FDLMREIRARK  179 (206)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHcc
Confidence            99999988764

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=2e-34  Score=213.24  Aligned_cols=172  Identities=37%  Similarity=0.715  Sum_probs=156.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            35678999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|+|++++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++|+
T Consensus        86 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  165 (186)
T 2bme_A           86 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV  165 (186)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHH
Confidence            99999999999999999999988777667899999999999977677788888899999999999999999999999999


Q ss_pred             HHHHHHHHhhcc
Q psy2300         177 RLVDIICDKMSE  188 (221)
Q Consensus       177 ~i~~~~~~~~~~  188 (221)
                      +|.+.+.++...
T Consensus       166 ~l~~~~~~~~~~  177 (186)
T 2bme_A          166 QCARKILNKIES  177 (186)
T ss_dssp             HHHHHHHHHHHS
T ss_pred             HHHHHHHHHhhh
Confidence            999999887643

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=2.3e-34  Score=211.38  Aligned_cols=169  Identities=37%  Similarity=0.757  Sum_probs=153.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      ...++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   89 (179)
T 1z0f_A           10 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   89 (179)
T ss_dssp             -CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCS
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCC
Confidence            44567899999999999999999999999988878888888888888888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  169 (179)
T 1z0f_A           90 GALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAF  169 (179)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            99999999999999999999999888766789999999999997767778888999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         176 ERLVDIICD  184 (221)
Q Consensus       176 ~~i~~~~~~  184 (221)
                      ++|.+.+.+
T Consensus       170 ~~l~~~i~~  178 (179)
T 1z0f_A          170 LEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHC-
T ss_pred             HHHHHHHhh
Confidence            999987754

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=4.1e-34  Score=212.63  Aligned_cols=176  Identities=45%  Similarity=0.920  Sum_probs=154.3

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeE-EEEEEeCCe---------EEEEEEEeCCCccc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK-VKTVFRHDK---------RVKLQIWDTAGQER   82 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~g~~~   82 (221)
                      |...+++..++|+|+|.+|+|||||+++|++..+...+.++.+.++. ...+..++.         .+.+.+||+||++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   82 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLER   82 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGG
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHH
Confidence            45556788999999999999999999999999988888888888777 556666655         78999999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEE
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFF  161 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  161 (221)
                      +..++..++..+|++|+|+|++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...++...+++++
T Consensus        83 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  162 (195)
T 3bc1_A           83 FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYF  162 (195)
T ss_dssp             GHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEE
Confidence            999999999999999999999999999999999998877653 6899999999999977667778888999999999999


Q ss_pred             EEecCCCCCHHHHHHHHHHHHHHhhcc
Q psy2300         162 ETSAKDNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                      ++||++|.|++++|++|.+.+.++...
T Consensus       163 ~~Sa~~~~~v~~l~~~l~~~~~~~~~~  189 (195)
T 3bc1_A          163 ETSAANGTNISHAIEMLLDLIMKRMER  189 (195)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhhh
Confidence            999999999999999999999877643

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=1.4e-34  Score=215.65  Aligned_cols=173  Identities=47%  Similarity=0.838  Sum_probs=147.2

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR   92 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   92 (221)
                      ..+++.+..++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||++|++.+..++..++.
T Consensus        18 ~~p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~   97 (192)
T 2il1_A           18 GSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYR   97 (192)
T ss_dssp             ----CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHH
T ss_pred             CCCcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhc
Confidence            34556678999999999999999999999999887778888888888888888888899999999999999999999999


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-CCeEEEEecCCCCCH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-GVEFFETSAKDNVNV  171 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi  171 (221)
                      .+|++|+|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++.+.++... +++++++||++|.|+
T Consensus        98 ~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  177 (192)
T 2il1_A           98 SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNV  177 (192)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSH
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCH
Confidence            9999999999999999999999999888877678999999999999777777788888888874 789999999999999


Q ss_pred             HHHHHHHHHHHHHh
Q psy2300         172 KGVFERLVDIICDK  185 (221)
Q Consensus       172 ~~l~~~i~~~~~~~  185 (221)
                      +++|++|.+.+.++
T Consensus       178 ~~l~~~l~~~i~~~  191 (192)
T 2il1_A          178 DEIFLKLVDDILKK  191 (192)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999988764

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=1.8e-34  Score=210.31  Aligned_cols=167  Identities=37%  Similarity=0.719  Sum_probs=144.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .++.++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            35789999999999999999999999998888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  162 (170)
T 1z08_A           83 ILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLD  162 (170)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            99999999999999999998887655458999999999999777777888899999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy2300         178 LVDIICD  184 (221)
Q Consensus       178 i~~~~~~  184 (221)
                      |.+.+.+
T Consensus       163 l~~~~~~  169 (170)
T 1z08_A          163 LCKRMIE  169 (170)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9988754

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=6.5e-34  Score=209.50  Aligned_cols=168  Identities=36%  Similarity=0.614  Sum_probs=152.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ....++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|++
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   88 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAA   88 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEE
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEE
Confidence            35689999999999999999999999998887888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|++++.+++.+..|+..+.....++.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        89 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  168 (181)
T 2efe_B           89 IIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYE  168 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            99999999999999999999998876678999999999999877778888899999999999999999999999999999


Q ss_pred             HHHHHHHh
Q psy2300         178 LVDIICDK  185 (221)
Q Consensus       178 i~~~~~~~  185 (221)
                      |.+.+.+.
T Consensus       169 l~~~~~~~  176 (181)
T 2efe_B          169 IARRLPRV  176 (181)
T ss_dssp             HHHTCC--
T ss_pred             HHHHHHhc
Confidence            98866443

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=1.6e-34  Score=217.31  Aligned_cols=169  Identities=34%  Similarity=0.652  Sum_probs=148.1

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .+..++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCC   84 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEE
Confidence            35679999999999999999999999998888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCC----CCCcEEEEEeCCCCCCCcccCHHHHHHHHH-HhCCeEEEEecCCCCCHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSW----DNAQVILVGNKCDMEDERVISFERGKHLAE-SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~  172 (221)
                      |+|+|++++.++..+..|+..+.....    .+.|+++|+||+|+. .+.+..++...++. ..+++++++||++|.|++
T Consensus        85 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  163 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVE  163 (207)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            999999999999999889888765432    478999999999997 34556677777777 567899999999999999


Q ss_pred             HHHHHHHHHHHHhhc
Q psy2300         173 GVFERLVDIICDKMS  187 (221)
Q Consensus       173 ~l~~~i~~~~~~~~~  187 (221)
                      ++|++|.+.+.+...
T Consensus       164 ~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          164 QAFQTIARNALKQET  178 (207)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=5.9e-34  Score=207.47  Aligned_cols=166  Identities=53%  Similarity=0.938  Sum_probs=144.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   81 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEE
Confidence            56999999999999999999999999888888888888888888888878899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+. .+.+..++...+++.++++++++||++|.|++++|++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  160 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  160 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC-cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHH
Confidence            9999999999999999999888766789999999999994 445677888889999999999999999999999999999


Q ss_pred             HHHHHhh
Q psy2300         180 DIICDKM  186 (221)
Q Consensus       180 ~~~~~~~  186 (221)
                      +.+.++.
T Consensus       161 ~~~~~~~  167 (170)
T 1g16_A          161 KLIQEKI  167 (170)
T ss_dssp             HHHHHTC
T ss_pred             HHHHHHh
Confidence            9887654

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.2e-33  Score=207.84  Aligned_cols=171  Identities=45%  Similarity=0.798  Sum_probs=145.1

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      +..+..++|+|+|.+|+|||||+++|++..+. ..+.++.+.++....+..++..+.+.+||+||++.+..++..++..+
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            34567899999999999999999999998874 46678888888877778888889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      |++++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        85 d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  164 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLA  164 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999999999999988776668999999999999877777888888999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy2300         175 FERLVDIICDKM  186 (221)
Q Consensus       175 ~~~i~~~~~~~~  186 (221)
                      |++|.+.+.++.
T Consensus       165 ~~~l~~~~~~~~  176 (180)
T 2g6b_A          165 FTAIAKELKRRS  176 (180)
T ss_dssp             HHHHHHHHHC--
T ss_pred             HHHHHHHHHHHh
Confidence            999999886543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=1.4e-33  Score=205.48  Aligned_cols=164  Identities=35%  Similarity=0.675  Sum_probs=151.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      .+.++|+|+|++|+|||||+++|.+..+...+.++.+.++.......++..+.+.+||+||.+.+..++..++..+|+++
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i   83 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAI   83 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEE
Confidence            46799999999999999999999999988888899998888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|++++.++..+..|+..+.....+..|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i  163 (170)
T 1z0j_A           84 IVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEI  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHH
Confidence            99999999999999999999988766789999999999998777777888889999999999999999999999999999


Q ss_pred             HHHH
Q psy2300         179 VDII  182 (221)
Q Consensus       179 ~~~~  182 (221)
                      .+.+
T Consensus       164 ~~~i  167 (170)
T 1z0j_A          164 SRRI  167 (170)
T ss_dssp             HHHC
T ss_pred             HHHH
Confidence            8765

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.5e-34  Score=213.41  Aligned_cols=169  Identities=34%  Similarity=0.642  Sum_probs=152.2

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      +.++..+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|
T Consensus        18 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   97 (192)
T 2fg5_A           18 GSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSA   97 (192)
T ss_dssp             ---CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCS
T ss_pred             cccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCC
Confidence            34567899999999999999999999999987788899999888888888888899999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        98 ~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  177 (192)
T 2fg5_A           98 AAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELF  177 (192)
T ss_dssp             EEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999999999988766789999999999997666777888999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         176 ERLVDIICD  184 (221)
Q Consensus       176 ~~i~~~~~~  184 (221)
                      ++|.+.+.+
T Consensus       178 ~~l~~~i~~  186 (192)
T 2fg5_A          178 QGISRQIPP  186 (192)
T ss_dssp             HHHHHTCC-
T ss_pred             HHHHHHHHh
Confidence            999886643

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=9.5e-34  Score=206.27  Aligned_cols=164  Identities=38%  Similarity=0.707  Sum_probs=150.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|+++.+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i   83 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAI   83 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEE
Confidence            35799999999999999999999999888778888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|++++.++..+..|+..+.....++.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        84 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i  163 (170)
T 1r2q_A           84 VVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI  163 (170)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999999999999887766789999999999997766777888888999999999999999999999999999


Q ss_pred             HHHH
Q psy2300         179 VDII  182 (221)
Q Consensus       179 ~~~~  182 (221)
                      .+.+
T Consensus       164 ~~~~  167 (170)
T 1r2q_A          164 AKKL  167 (170)
T ss_dssp             HHTS
T ss_pred             HHHH
Confidence            8754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=1.9e-33  Score=207.52  Aligned_cols=168  Identities=28%  Similarity=0.501  Sum_probs=150.8

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      .+..+.+||+|+|.+|+|||||+++|++..+...+.++.+..+ ......++..+.+.+||+||++.+..++..+++.+|
T Consensus        13 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d   91 (183)
T 3kkq_A           13 SENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGD   91 (183)
T ss_dssp             -CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCS
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence            3445789999999999999999999999988888888887666 666777888889999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC-CCCCHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK-DNVNVKG  173 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~gi~~  173 (221)
                      ++++|+|++++.+++.+..|+..+... ...+.|+++|+||+|+.+.+.+..++...++..++++++++||+ +|.|+++
T Consensus        92 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~  171 (183)
T 3kkq_A           92 GFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDK  171 (183)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHH
Confidence            999999999999999999998888553 34689999999999998878888899999999999999999999 9999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         174 VFERLVDIICD  184 (221)
Q Consensus       174 l~~~i~~~~~~  184 (221)
                      +|++|.+.+.+
T Consensus       172 l~~~l~~~i~~  182 (183)
T 3kkq_A          172 TFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999998865

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=6.7e-34  Score=207.07  Aligned_cols=163  Identities=37%  Similarity=0.657  Sum_probs=148.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            35899999999999999999999999888888898988888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC---cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE---RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+...   +.+..++...++...+++++++||++|.|++++|+
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  161 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEecCChHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999999988776678999999999998654   56777888888888999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         177 RLVDII  182 (221)
Q Consensus       177 ~i~~~~  182 (221)
                      +|.+.+
T Consensus       162 ~l~~~i  167 (170)
T 1ek0_A          162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHH
Confidence            988754

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=3.5e-34  Score=217.23  Aligned_cols=181  Identities=43%  Similarity=0.877  Sum_probs=153.7

Q ss_pred             hhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe----------EEEEEEEeCCC
Q psy2300          10 QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK----------RVKLQIWDTAG   79 (221)
Q Consensus        10 ~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~g   79 (221)
                      ..+.....+++.++|+|+|.+|+|||||+++|++..+...+.++.+.++....+.+++.          .+.+.+|||||
T Consensus        14 ~~~~~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G   93 (217)
T 2f7s_A           14 LVPRGSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAG   93 (217)
T ss_dssp             -------CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEES
T ss_pred             cCcCcCCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCC
Confidence            34455667788999999999999999999999999887777888887777777766655          68899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGV  158 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  158 (221)
                      ++.+..++..++..+|++|+|||++++.++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...++..+++
T Consensus        94 ~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~  173 (217)
T 2f7s_A           94 QERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGI  173 (217)
T ss_dssp             HHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTC
T ss_pred             cHhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCC
Confidence            999999999999999999999999999999999989887765443 5899999999999987777788889999999999


Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHHhhcccc
Q psy2300         159 EFFETSAKDNVNVKGVFERLVDIICDKMSESL  190 (221)
Q Consensus       159 ~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~  190 (221)
                      +++++||++|.|++++|++|.+.+.++.....
T Consensus       174 ~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~~~  205 (217)
T 2f7s_A          174 PYFETSAATGQNVEKAVETLLDLIMKRMEQCV  205 (217)
T ss_dssp             CEEEEBTTTTBTHHHHHHHHHHHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHHHhhcCC
Confidence            99999999999999999999999988765433

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=2.9e-33  Score=211.35  Aligned_cols=173  Identities=51%  Similarity=0.921  Sum_probs=151.5

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      .+.+.+..++|+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..
T Consensus        13 ~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   92 (213)
T 3cph_A           13 NGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRG   92 (213)
T ss_dssp             -------CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTT
T ss_pred             CCCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcc
Confidence            34455678999999999999999999999999888888888888888888888888999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      +|++++|+|++++.++..+..|+..+......+.|+++|+||+|+ ..+.+..++...++..++++++++||++|.|+++
T Consensus        93 ~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  171 (213)
T 3cph_A           93 AMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNE  171 (213)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999999999999988776568999999999999 4455667788888888999999999999999999


Q ss_pred             HHHHHHHHHHHhhc
Q psy2300         174 VFERLVDIICDKMS  187 (221)
Q Consensus       174 l~~~i~~~~~~~~~  187 (221)
                      +|++|.+.+.++..
T Consensus       172 l~~~l~~~~~~~~~  185 (213)
T 3cph_A          172 IFFTLAKLIQEKID  185 (213)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887764

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=2.1e-33  Score=207.02  Aligned_cols=168  Identities=34%  Similarity=0.486  Sum_probs=149.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ....++|+|+|.+|+|||||+++|+++.+...+.++.+.++ ...+..++..+.+.+||+||++.+..++..+++.+|++
T Consensus         3 ~~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   81 (181)
T 3t5g_A            3 QSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGY   81 (181)
T ss_dssp             CEEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEE
Confidence            34689999999999999999999999888888888888777 66677788889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ++|+|++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|+
T Consensus        82 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           82 ILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHH
Confidence            99999999999999999998886554 35799999999999988888889999999999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      +|++.+.+..
T Consensus       162 ~l~~~~~~~~  171 (181)
T 3t5g_A          162 RIILEAEKMD  171 (181)
T ss_dssp             HHHHHHHTC-
T ss_pred             HHHHHHHHhc
Confidence            9999887654

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=5.9e-34  Score=215.79  Aligned_cols=178  Identities=28%  Similarity=0.508  Sum_probs=145.0

Q ss_pred             hhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc
Q psy2300           8 KWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus         8 ~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      +..+.+.+.+....+||+|+|.+|+|||||+++|+++.+...+.++.+.++ ...+..++..+.+.+|||+|++.+..++
T Consensus        14 ~~~q~~~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   92 (214)
T 3q3j_B           14 LYFQGRAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVR   92 (214)
T ss_dssp             -------------CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTG
T ss_pred             hHhhccCCCCccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHH
Confidence            345556666667899999999999999999999999998888888887766 3455667778899999999999999999


Q ss_pred             hhhccCCcEEEEEEECCChhhHHH-HHHHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHH
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTS-IQDWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAE  154 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~-~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~  154 (221)
                      ..+++.+|++|+|||++++.++.. +..|+..+.... .+.|+++|+||+|+.+.            +.+..++...++.
T Consensus        93 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~  171 (214)
T 3q3j_B           93 PLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAK  171 (214)
T ss_dssp             GGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHH
T ss_pred             HHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHH
Confidence            999999999999999999999998 688999987765 68999999999999653            5688889999999


Q ss_pred             HhCC-eEEEEecCCCCC-HHHHHHHHHHHHHHhhc
Q psy2300         155 SLGV-EFFETSAKDNVN-VKGVFERLVDIICDKMS  187 (221)
Q Consensus       155 ~~~~-~~~~~Sa~~~~g-i~~l~~~i~~~~~~~~~  187 (221)
                      .+++ ++++|||++|.| ++++|++|++.+.++..
T Consensus       172 ~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          172 QLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             HHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             HcCCCEEEEeccCCCcccHHHHHHHHHHHHhccCc
Confidence            9999 999999999998 99999999998876553

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=9.6e-34  Score=205.98  Aligned_cols=165  Identities=36%  Similarity=0.669  Sum_probs=150.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +..++|+|+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            46799999999999999999999999988888888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|++++.+++.+..|+..+.... .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  161 (168)
T 1z2a_A           83 LVFSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  161 (168)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHH
Confidence            9999999999999999998886654 689999999999997766777888889999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      .+.+.+
T Consensus       162 ~~~~~~  167 (168)
T 1z2a_A          162 AEKHLQ  167 (168)
T ss_dssp             HHHHHC
T ss_pred             HHHHhh
Confidence            988764

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=2.6e-33  Score=206.02  Aligned_cols=170  Identities=30%  Similarity=0.503  Sum_probs=150.1

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      +....++|+|+|.+|+|||||+++|++..+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            3456899999999999999999999999887777888776665 566677788899999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +++|+|++++.++..+..|+..+.. ....+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        84 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  163 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  163 (181)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999999888743 344689999999999998777788888888998999999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy2300         176 ERLVDIICDKMS  187 (221)
Q Consensus       176 ~~i~~~~~~~~~  187 (221)
                      ++|.+.+.+...
T Consensus       164 ~~l~~~~~~~~~  175 (181)
T 2fn4_A          164 EQLVRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhc
Confidence            999999877653

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=6.5e-34  Score=213.11  Aligned_cols=171  Identities=37%  Similarity=0.678  Sum_probs=139.0

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      .+...+..++|+|+|.+|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..++..
T Consensus        21 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~  100 (199)
T 2p5s_A           21 KSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRK  100 (199)
T ss_dssp             -------CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHH
T ss_pred             CCcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhh
Confidence            44555678999999999999999999999999877888888888888888888888999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC------CCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME------DERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      +|++|+|+|++++.++..+..|+..+......+.|+++|+||+|+.      ..+.+..++...++...+++++++||++
T Consensus       101 ~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~  180 (199)
T 2p5s_A          101 ADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKD  180 (199)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTT
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCC
Confidence            9999999999999999999999999887766689999999999985      3456777888889999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDIICD  184 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~  184 (221)
                      |.|++++|++|.+.+.+
T Consensus       181 g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          181 GSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             CTTHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999999999987753

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=1.5e-33  Score=210.57  Aligned_cols=173  Identities=26%  Similarity=0.373  Sum_probs=143.9

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-cchhhcc
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-ITTAYYR   92 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~   92 (221)
                      .+.+.+..+||+|+|.+|||||||+++|++........++.+.+.....+.+++..+.+.+||++|++.+.. ++..+++
T Consensus        16 ~~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~   95 (195)
T 3cbq_A           16 FQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQ   95 (195)
T ss_dssp             ------CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHH
T ss_pred             CCCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhc
Confidence            344556789999999999999999999986554334445556666666777888889999999999987664 7777889


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      .+|++|+|||++++.+|..+..|+..+..... .+.|+++|+||+|+.+.+.++.++...++..++++++++||++|.|+
T Consensus        96 ~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v  175 (195)
T 3cbq_A           96 TGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNT  175 (195)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCH
Confidence            99999999999999999999999998876542 47999999999999877778888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy2300         172 KGVFERLVDIICDKM  186 (221)
Q Consensus       172 ~~l~~~i~~~~~~~~  186 (221)
                      +++|++|++.+.++.
T Consensus       176 ~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          176 RELFEGAVRQIRLRR  190 (195)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999886543

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=4.9e-33  Score=203.63  Aligned_cols=168  Identities=26%  Similarity=0.385  Sum_probs=137.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--ccccchhhccCCcE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--YRTITTAYYRGAMG   96 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~~~~~~~~d~   96 (221)
                      .+.++|+|+|++|+|||||+++|.+..+... .++.+.++....+.+++..+.+.+||++|++.  +..+...++..+|+
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~   80 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSA   80 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC------CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCccc-cCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCE
Confidence            3579999999999999999999999886443 45567777777788888889999999999887  55666778899999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +++|||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           81 YVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            999999999999999999988887653 3579999999999998877788888888888899999999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy2300         176 ERLVDIICDKMS  187 (221)
Q Consensus       176 ~~i~~~~~~~~~  187 (221)
                      ++|.+.+.++..
T Consensus       161 ~~l~~~~~~~~~  172 (175)
T 2nzj_A          161 EGVVRQLRLRRR  172 (175)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHhhc
Confidence            999999876653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=1.2e-33  Score=211.90  Aligned_cols=176  Identities=30%  Similarity=0.488  Sum_probs=144.4

Q ss_pred             hhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh
Q psy2300          11 KDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY   90 (221)
Q Consensus        11 ~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   90 (221)
                      ......+....+||+|+|.+|+|||||+++|++..+...+.++.+..+ ......++..+.+.+|||||++.+..++..+
T Consensus        14 ~~~q~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   92 (201)
T 3oes_A           14 LYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSF   92 (201)
T ss_dssp             ---------CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGG
T ss_pred             CCCCCCCCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHH
Confidence            334445556789999999999999999999999998877778777666 5555556667899999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                      ++.+|++++|||++++.++..+..|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.
T Consensus        93 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~  172 (201)
T 3oes_A           93 IIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQ  172 (201)
T ss_dssp             TTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHH
T ss_pred             HhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCC
Confidence            999999999999999999999999999886653 3478999999999998778888889999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhhc
Q psy2300         170 NVKGVFERLVDIICDKMS  187 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~~  187 (221)
                      |++++|++|.+.+.+...
T Consensus       173 ~v~~l~~~l~~~i~~~~~  190 (201)
T 3oes_A          173 LTQGIFTKVIQEIARVEN  190 (201)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             CHHHHHHHHHHHHHhhhh
Confidence            999999999999877653

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=3.3e-33  Score=203.53  Aligned_cols=165  Identities=26%  Similarity=0.396  Sum_probs=133.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-cchhhccCCcEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-ITTAYYRGAMGFIL   99 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~vi~   99 (221)
                      .+||+|+|++|+|||||+++|.+..+.....++.+.+.....+..++..+.+.+||++|++.+.. ++..++..+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            58999999999999999999998776666666666777777788888889999999999988775 67777899999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |+|+++++++..+..|+..+..... .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  161 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGA  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHH
Confidence            9999999999999999998877653 489999999999998778888899999999999999999999999999999999


Q ss_pred             HHHHHHh
Q psy2300         179 VDIICDK  185 (221)
Q Consensus       179 ~~~~~~~  185 (221)
                      .+.+..+
T Consensus       162 ~~~i~~~  168 (169)
T 3q85_A          162 VRQIRLR  168 (169)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9988765

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=7.6e-33  Score=206.12  Aligned_cols=167  Identities=44%  Similarity=0.776  Sum_probs=151.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+..++..+++.+|++|
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   92 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   92 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEE
Confidence            46799999999999999999999999988888899898888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.. +.+..++...++...+++++++||++|.|++++|++
T Consensus        93 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  171 (195)
T 1x3s_A           93 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE  171 (195)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            9999999999999999998887654 35789999999999954 456677888899999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy2300         178 LVDIICDKM  186 (221)
Q Consensus       178 i~~~~~~~~  186 (221)
                      |.+.+.+..
T Consensus       172 l~~~~~~~~  180 (195)
T 1x3s_A          172 LVEKIIQTP  180 (195)
T ss_dssp             HHHHHHTSG
T ss_pred             HHHHHHhhh
Confidence            999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=1.1e-33  Score=207.79  Aligned_cols=167  Identities=32%  Similarity=0.510  Sum_probs=147.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-eEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ...++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++ ..+.+.+||+||++.+..++..++..+|++
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~   83 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGV   83 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEE
Confidence            4679999999999999999999999988777778888778888887776 578999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCC--CCCc-EEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSW--DNAQ-VILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~p-~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++|+|++++.+++.+..|+..+.....  .+.| +++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  163 (178)
T 2hxs_A           84 LLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLC  163 (178)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHH
Confidence            999999999999999999888866421  2445 8999999999776677788888999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q psy2300         175 FERLVDIICDK  185 (221)
Q Consensus       175 ~~~i~~~~~~~  185 (221)
                      |++|.+.+.+.
T Consensus       164 ~~~l~~~~~~~  174 (178)
T 2hxs_A          164 FQKVAAEILGI  174 (178)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHHhh
Confidence            99999887654

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=2.8e-33  Score=207.92  Aligned_cols=169  Identities=35%  Similarity=0.664  Sum_probs=147.2

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-ccchhhccC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-TITTAYYRG   93 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~   93 (221)
                      +.+....+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+. .++..+++.
T Consensus        14 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (189)
T 1z06_A           14 RGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRN   93 (189)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTT
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcC
Confidence            3444568999999999999999999999999888888888888888888888888999999999999888 788889999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC---C
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN---V  169 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~  169 (221)
                      +|++|+|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|   .
T Consensus        94 ~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~  173 (189)
T 1z06_A           94 VHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDND  173 (189)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGS
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCccc
Confidence            999999999999999999999999887764 468999999999999777777888889999999999999999999   9


Q ss_pred             CHHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDIIC  183 (221)
Q Consensus       170 gi~~l~~~i~~~~~  183 (221)
                      |++++|++|.+.+.
T Consensus       174 ~i~~l~~~l~~~i~  187 (189)
T 1z06_A          174 HVEAIFMTLAHKLK  187 (189)
T ss_dssp             CHHHHHHHHC----
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999988764

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=8.1e-33  Score=202.91  Aligned_cols=166  Identities=34%  Similarity=0.639  Sum_probs=144.7

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .+..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|++
T Consensus         4 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   83 (177)
T 1wms_A            4 KSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCC   83 (177)
T ss_dssp             CEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEE
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEE
Confidence            45789999999999999999999999998888888888888888888888889999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCC----CCCcEEEEEeCCCCCCCcccCHHHHHHHHH-HhCCeEEEEecCCCCCHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSW----DNAQVILVGNKCDMEDERVISFERGKHLAE-SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~  172 (221)
                      ++|+|++++.++..+..|+..+.....    .+.|+++|+||+|+. .+.+..++...++. ..+++++++||++|.|++
T Consensus        84 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (177)
T 1wms_A           84 LLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  162 (177)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHH
Confidence            999999999999999989988866542    578999999999997 45567778888887 556899999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2300         173 GVFERLVDIICD  184 (221)
Q Consensus       173 ~l~~~i~~~~~~  184 (221)
                      ++|++|++.+.+
T Consensus       163 ~l~~~l~~~~~~  174 (177)
T 1wms_A          163 AAFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=2.5e-33  Score=207.98  Aligned_cols=165  Identities=25%  Similarity=0.378  Sum_probs=141.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ....+||+|+|.+|+|||||+++|++..+...+.++.+..+ ......++..+.+.+|||+|++.+..+ ..++..+|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            34679999999999999999999999998888888887665 345667888899999999999988775 6689999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEec-CCCCCHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSA-KDNVNVKG  173 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~gi~~  173 (221)
                      ++|||++++.+++.+..|+..+....   ..+.|+++|+||+|+.+.+.++.++...++..++++++++|| ++|.|+++
T Consensus        96 ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~  175 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQH  175 (187)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHH
Confidence            99999999999999999999887653   258999999999999877778888999999999999999999 89999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         174 VFERLVDIICD  184 (221)
Q Consensus       174 l~~~i~~~~~~  184 (221)
                      +|++|++.+.+
T Consensus       176 lf~~l~~~i~~  186 (187)
T 3c5c_A          176 VFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            99999988754

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=1e-32  Score=204.24  Aligned_cols=168  Identities=20%  Similarity=0.335  Sum_probs=142.5

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      +....+....+||+|+|.+|||||||+++|+++.+...+.++.+  .....+.+++..+.+.+|||+|++.+.     ++
T Consensus        11 ~~~~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~   83 (184)
T 3ihw_A           11 RENLYFQGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG--RFKKEIVVDGQSYLLLIRDEGGPPELQ-----FA   83 (184)
T ss_dssp             -----CCCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTTCE--EEEEEEEETTEEEEEEEEECSSSCCHH-----HH
T ss_pred             CCCCCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCCcc--eEEEEEEECCEEEEEEEEECCCChhhh-----ee
Confidence            34445566799999999999999999999999998777777633  334677788888999999999998776     77


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC-CCCcEEEEEeCCCC--CCCcccCHHHHHHHHHHhC-CeEEEEecCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDM--EDERVISFERGKHLAESLG-VEFFETSAKD  167 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p~ivv~nK~Dl--~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  167 (221)
                      +.+|++++|||++++.+++.+..|+..+..... .+.|+++|+||+|+  ...+.+..++...++..++ +.++++||++
T Consensus        84 ~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~  163 (184)
T 3ihw_A           84 AWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATY  163 (184)
T ss_dssp             HHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTT
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCC
Confidence            889999999999999999999999999877642 57899999999999  3456778888999999987 8999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy2300         168 NVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~  186 (221)
                      |.|++++|++|++.+.+++
T Consensus       164 ~~gv~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          164 GLNVERVFQDVAQKVVALR  182 (184)
T ss_dssp             TBTHHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHHHh
Confidence            9999999999999988765

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=2.9e-33  Score=205.45  Aligned_cols=164  Identities=43%  Similarity=0.742  Sum_probs=149.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..++..+|++++
T Consensus        13 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~   92 (179)
T 2y8e_A           13 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVV   92 (179)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEE
Confidence            56999999999999999999999998888888888888888888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        93 v~d~~~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  172 (179)
T 2y8e_A           93 VYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA  172 (179)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999999988776556899999999999977777778888888999999999999999999999999998


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      +.+.
T Consensus       173 ~~~~  176 (179)
T 2y8e_A          173 AALP  176 (179)
T ss_dssp             HTCC
T ss_pred             HHHh
Confidence            7653

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=1.9e-32  Score=205.17  Aligned_cols=166  Identities=35%  Similarity=0.596  Sum_probs=147.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeE----------------------------
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKR----------------------------   69 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------------------   69 (221)
                      .+..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..++..                            
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQH   83 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC------------------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCcccccccccccccccccccccccccccccc
Confidence            4567999999999999999999999999888888888888877777766554                            


Q ss_pred             ---------EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          70 ---------VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        70 ---------~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                               +.+.+||+||++.+..++..+++.+|++++|+|++++.++..+..|+..+....  +.|+++|+||+| ..
T Consensus        84 ~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~  160 (208)
T 3clv_A           84 NNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KN  160 (208)
T ss_dssp             -CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC
T ss_pred             ccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-cc
Confidence                     789999999999999999999999999999999999999999999999988765  599999999999 45


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      .+.+..++...++...+++++++||++|.|++++|++|.+.+.++.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          161 KFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             -CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            5667788899999999999999999999999999999999988764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=100.00  E-value=2.5e-32  Score=202.23  Aligned_cols=168  Identities=32%  Similarity=0.557  Sum_probs=143.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|.+..+...+.++.+ +.....+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            3579999999999999999999999987776666664 344456667888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+ +....+....++..++++++++||++|.|++++|++
T Consensus        81 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~  159 (189)
T 4dsu_A           81 CVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYT  159 (189)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999998887754 45899999999999974 455677888999999999999999999999999999


Q ss_pred             HHHHHHHhhcc
Q psy2300         178 LVDIICDKMSE  188 (221)
Q Consensus       178 i~~~~~~~~~~  188 (221)
                      |.+.+.+....
T Consensus       160 l~~~~~~~~~~  170 (189)
T 4dsu_A          160 LVREIRKHKEK  170 (189)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhhhh
Confidence            99999877643

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=8.9e-33  Score=205.94  Aligned_cols=170  Identities=31%  Similarity=0.568  Sum_probs=147.3

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      .|...+....++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++
T Consensus         9 ~m~~~~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   87 (194)
T 2atx_A            9 SMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSY   87 (194)
T ss_dssp             CCSSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGC
T ss_pred             ccCCCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhc
Confidence            34555556889999999999999999999999988777777776554 34566677778999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV  158 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~  158 (221)
                      ..+|++++|+|++++.++..+. .|+..+.... .+.|+++|+||+|+.+.            +.+..++...++..+++
T Consensus        88 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  166 (194)
T 2atx_A           88 PMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGA  166 (194)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTC
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCC
Confidence            9999999999999999999997 6888887764 48999999999999653            35777888899999997


Q ss_pred             -eEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         159 -EFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       159 -~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                       +++++||++|.|++++|++|.+.+.
T Consensus       167 ~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          167 CCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence             9999999999999999999998775

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=9.4e-33  Score=200.55  Aligned_cols=163  Identities=25%  Similarity=0.396  Sum_probs=123.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|.+|+|||||+++|.+..+. ...++.+.++ ...+..++..+.+.+||++|++.+..++..++..+|++++|
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v   79 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   79 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCcccc-CCCCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEE
Confidence            589999999999999999999977643 3345555555 45567788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +|++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           80 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            99999999999999988887653 46899999999999988888888899999999999999999999999999999999


Q ss_pred             HHHHHh
Q psy2300         180 DIICDK  185 (221)
Q Consensus       180 ~~~~~~  185 (221)
                      +.+.++
T Consensus       160 ~~~~~~  165 (166)
T 3q72_A          160 RQIRLR  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            988765

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=1.4e-32  Score=204.90  Aligned_cols=168  Identities=31%  Similarity=0.565  Sum_probs=147.4

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .....+||+|+|.+|+|||||+++|++..+...+.++.+..+.. .+..++..+.+.+|||||++.+..++..+++.+|+
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   97 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDV   97 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSE
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEE-EEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcE
Confidence            44578999999999999999999999999877888888766654 56678888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCC--CcccCHHHHHHHHHHhCCe-EEEEecCCCCCHH
Q psy2300          97 FILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMED--ERVISFERGKHLAESLGVE-FFETSAKDNVNVK  172 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~  172 (221)
                      +++|+|++++.++..+ ..|+..+.... .+.|+++|+||+|+.+  .+.+..++...++..+++. ++++||++|.|++
T Consensus        98 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  176 (194)
T 3reg_A           98 VLLCFAVNNRTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLN  176 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHH
Confidence            9999999999999997 56888887654 6799999999999965  3667788899999999987 9999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+.++.
T Consensus       177 ~l~~~l~~~i~~~~  190 (194)
T 3reg_A          177 EVFEKSVDCIFSNK  190 (194)
T ss_dssp             HHHHHHHHHHHCSC
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999887654

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=100.00  E-value=4.3e-33  Score=211.38  Aligned_cols=176  Identities=28%  Similarity=0.478  Sum_probs=150.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe-EEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ....+||+|+|.+|+|||||+++|++..+...+.++.+.+.........+. .+.+.+|||+|++.+..++..++..+|+
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASG   87 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSE
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCE
Confidence            346899999999999999999999999887777788887777776655443 4889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|+|++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        88 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~  167 (218)
T 4djt_A           88 AILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFL  167 (218)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHH
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHH
Confidence            99999999999999999999998877666799999999999988777888888888888899999999999999999999


Q ss_pred             HHHHHHHHhhccccCCC
Q psy2300         177 RLVDIICDKMSESLDSD  193 (221)
Q Consensus       177 ~i~~~~~~~~~~~~~~~  193 (221)
                      +|.+.+.+.........
T Consensus       168 ~l~~~~~~~~~~~~~~~  184 (218)
T 4djt_A          168 HLARIFTGRPDLIFVSN  184 (218)
T ss_dssp             HHHHHHHCCTTCCBCSC
T ss_pred             HHHHHHhcccccccccc
Confidence            99999987765444333

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=4.4e-33  Score=210.44  Aligned_cols=167  Identities=30%  Similarity=0.619  Sum_probs=142.8

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      ....++|+|+|++|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..++..+|++
T Consensus         6 ~~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   84 (212)
T 2j0v_A            6 VSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIF   84 (212)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEE
Confidence            34679999999999999999999999988777777777554 34556677788999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--------cCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300          98 ILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERV--------ISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      |+|||++++.++..+. .|+..+.... ++.|++||+||+|+.+.+.        +..++...++..++. +++++||++
T Consensus        85 ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  163 (212)
T 2j0v_A           85 VLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKT  163 (212)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTT
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCC
Confidence            9999999999999997 6988887764 4899999999999966543        367788888888886 999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy2300         168 NVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~  186 (221)
                      |.|++++|++|++.+.+..
T Consensus       164 g~gi~~l~~~l~~~~~~~~  182 (212)
T 2j0v_A          164 QQNVKAVFDTAIKVVLQPP  182 (212)
T ss_dssp             CTTHHHHHHHHHHHHHCC-
T ss_pred             CCCHHHHHHHHHHHHhhhh
Confidence            9999999999999887654

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=8.4e-33  Score=203.51  Aligned_cols=169  Identities=36%  Similarity=0.655  Sum_probs=134.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+..++|+|+|++|+|||||+++|++..+...+.++.+.++....+..+ +..+.+.+||+||++.+..++..++..+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            3567999999999999999999999999888888888888888887776 456889999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCC----CCCcEEEEEeCCCCCC-CcccCHHHHHHHHH-HhCCeEEEEecCCCCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSW----DNAQVILVGNKCDMED-ERVISFERGKHLAE-SLGVEFFETSAKDNVN  170 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~----~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~g  170 (221)
                      +++|+|++++.++..+..|+..+.....    .+.|+++|+||+|+.. .+.+..++...++. ..+++++++||++|.|
T Consensus        85 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~g  164 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAIN  164 (182)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBS
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCC
Confidence            9999999999999999999988866532    5889999999999953 34566777888887 4567999999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q psy2300         171 VKGVFERLVDIICDKM  186 (221)
Q Consensus       171 i~~l~~~i~~~~~~~~  186 (221)
                      ++++|++|.+.+.++.
T Consensus       165 i~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          165 VDTAFEEIARSALQQN  180 (182)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999999888764

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.7e-33  Score=207.53  Aligned_cols=166  Identities=26%  Similarity=0.482  Sum_probs=141.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|.+..+...+.++.+.++. .....++..+.+.+|||||++.+..++..++..+|+++
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   84 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFI   84 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEE
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEE
Confidence            45799999999999999999999999887777777765443 34556777889999999999999988999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|||++++.+++.+..|+..+....  ..+.|+++|+||+|+.. +.+..++...++..++++++++||++|.|++++|+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  163 (199)
T 2gf0_A           85 LVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQ  163 (199)
T ss_dssp             EEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Confidence            9999999999999888887776543  24789999999999965 45567788888888999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      +|.+.+.++.
T Consensus       164 ~l~~~~~~~~  173 (199)
T 2gf0_A          164 ELLTLETRRN  173 (199)
T ss_dssp             HHHHHCSSSC
T ss_pred             HHHHHHhhhh
Confidence            9988775443

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=2.7e-32  Score=204.38  Aligned_cols=174  Identities=27%  Similarity=0.468  Sum_probs=138.1

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      ..........++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+||++|++.+..++..++
T Consensus        11 ~~~~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   89 (201)
T 2q3h_A           11 GRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCY   89 (201)
T ss_dssp             ---------CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGG
T ss_pred             cccCCCCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhc
Confidence            34445567789999999999999999999999887777777776444 44566777888999999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV  158 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~  158 (221)
                      ..+|++++|||++++.++..+. .|+..+.... .+.|+++|+||+|+.+            .+.+..++...++..++.
T Consensus        90 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~  168 (201)
T 2q3h_A           90 TNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKA  168 (201)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTC
T ss_pred             CCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCC
Confidence            9999999999999999999997 6988887764 4899999999999964            245677888889988887


Q ss_pred             -eEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         159 -EFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       159 -~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                       +++++||++|.|++++|++|.+.+.+...
T Consensus       169 ~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          169 ASYIECSALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             SEEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             cEEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence             99999999999999999999998877653

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=1.6e-32  Score=199.31  Aligned_cols=164  Identities=35%  Similarity=0.573  Sum_probs=141.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+|+|.+|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            458999999999999999999999988777777766554 3445667788899999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHH
Confidence            999999999999999988887654 3489999999999997777788888999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      .+.+.+
T Consensus       162 ~~~i~~  167 (168)
T 1u8z_A          162 MREIRA  167 (168)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            998764

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=1.2e-32  Score=199.93  Aligned_cols=162  Identities=35%  Similarity=0.626  Sum_probs=142.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .++|+|+|.+|+|||||+++|.++.+...+.++.+..+. .....++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v   81 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALV   81 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEE
Confidence            589999999999999999999999887777777775553 4556677788999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-CCeEEEEecCCCCCHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..+ +.+++++||++|.|++++|++|
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (167)
T 1c1y_A           82 YSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDL  161 (167)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHH
Confidence            99999999999999888876643 458999999999999877777888888888887 7899999999999999999999


Q ss_pred             HHHHH
Q psy2300         179 VDIIC  183 (221)
Q Consensus       179 ~~~~~  183 (221)
                      .+.+.
T Consensus       162 ~~~i~  166 (167)
T 1c1y_A          162 VRQIN  166 (167)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88763

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=2.4e-32  Score=201.87  Aligned_cols=168  Identities=35%  Similarity=0.553  Sum_probs=147.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus        16 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   94 (187)
T 2a9k_A           16 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFL   94 (187)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEE
Confidence            4679999999999999999999999988777777766554 344566778889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  174 (187)
T 2a9k_A           95 CVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFD  174 (187)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHH
Confidence            9999999999999999988886654 348999999999999776677888899999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy2300         178 LVDIICDKMS  187 (221)
Q Consensus       178 i~~~~~~~~~  187 (221)
                      |.+.+.++..
T Consensus       175 l~~~i~~~~~  184 (187)
T 2a9k_A          175 LMREIRARKM  184 (187)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHhhc
Confidence            9999877653

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.1e-32  Score=203.43  Aligned_cols=168  Identities=30%  Similarity=0.456  Sum_probs=145.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .....++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+||+||++. ..++..++..+|+
T Consensus        24 ~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~  101 (196)
T 2atv_A           24 AKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEG  101 (196)
T ss_dssp             ---CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCE
Confidence            345679999999999999999999999988777777777555 44566778889999999999887 6778888999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC-CHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV-NVKGV  174 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~~l  174 (221)
                      +++|||++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|. |++++
T Consensus       102 iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l  181 (196)
T 2atv_A          102 FVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEI  181 (196)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHH
Confidence            999999999999999999988886643 3589999999999997767788888999999999999999999999 99999


Q ss_pred             HHHHHHHHHHhh
Q psy2300         175 FERLVDIICDKM  186 (221)
Q Consensus       175 ~~~i~~~~~~~~  186 (221)
                      |++|++.+.++.
T Consensus       182 ~~~l~~~i~~~~  193 (196)
T 2atv_A          182 FYELCREVRRRR  193 (196)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999987764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=2.5e-32  Score=198.04  Aligned_cols=163  Identities=33%  Similarity=0.561  Sum_probs=143.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .++|+|+|++|+|||||+++|.++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFY-RKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILV   81 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcceeE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEE
Confidence            58999999999999999999999988777777666433 56667788888999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  161 (167)
T 1kao_A           82 YSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV  161 (167)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHH
T ss_pred             EeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHH
Confidence            99999999999999888876654 35899999999999977777778888889999999999999999999999999999


Q ss_pred             HHHHH
Q psy2300         180 DIICD  184 (221)
Q Consensus       180 ~~~~~  184 (221)
                      +.+.+
T Consensus       162 ~~~~~  166 (167)
T 1kao_A          162 RQMNY  166 (167)
T ss_dssp             HHHHH
T ss_pred             HHHhh
Confidence            88754

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.9e-32  Score=205.07  Aligned_cols=171  Identities=22%  Similarity=0.331  Sum_probs=138.7

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-ccccchhhccC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-YRTITTAYYRG   93 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~   93 (221)
                      ...+..+||+|+|.+|+|||||+++|++... .....++.+.++....+.+++..+.+.+|||+|.+. +..+...+++.
T Consensus        32 ~~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~  111 (211)
T 2g3y_A           32 ESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQV  111 (211)
T ss_dssp             ---CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCC
T ss_pred             ccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhh
Confidence            3445789999999999999999999996432 122334466666667777888889999999999876 45566677889


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|++++|||++++.+|+.+..|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..+++++++|||++|.|++
T Consensus       112 a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~  191 (211)
T 2g3y_A          112 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVK  191 (211)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            999999999999999999999988776532 3579999999999997767777788888888889999999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+..+.
T Consensus       192 elf~~l~~~i~~~~  205 (211)
T 2g3y_A          192 ELFEGIVRQVRLRR  205 (211)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999886544

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=100.00  E-value=2.1e-32  Score=202.41  Aligned_cols=165  Identities=25%  Similarity=0.559  Sum_probs=142.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .+..+||+|+|++|+|||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++..+|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            356799999999999999999999999887777788776653 4566677789999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhC-CeEEEE
Q psy2300          98 ILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLG-VEFFET  163 (221)
Q Consensus        98 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~  163 (221)
                      ++|+|++++.++..+ ..|+..+.... ++.|+++|+||+|+.+.            +.++.++...+++.++ .+++++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  161 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  161 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEe
Confidence            999999999999998 57888887654 58999999999999642            4577788889998888 699999


Q ss_pred             ecC-CCCCHHHHHHHHHHHHHH
Q psy2300         164 SAK-DNVNVKGVFERLVDIICD  184 (221)
Q Consensus       164 Sa~-~~~gi~~l~~~i~~~~~~  184 (221)
                      ||+ ++.|++++|++|.+.+.+
T Consensus       162 Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          162 SALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             BTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eecCCCcCHHHHHHHHHHHHhc
Confidence            998 689999999999988764

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=5.9e-32  Score=198.65  Aligned_cols=162  Identities=20%  Similarity=0.351  Sum_probs=136.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|.+|+|||||+++|+++.+.. +.++.+..+ ...+.+++..+.+.+|||+|++.     ..+++.+|+++
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~i   77 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVI   77 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEE
Confidence            357999999999999999999999998865 667766443 56667788889999999999876     45788899999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCC--CCcccCHHHHHHHHHHh-CCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDME--DERVISFERGKHLAESL-GVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~  172 (221)
                      +|||++++.++..+..|+..+....   ..+.|+++|+||+|+.  ..+.+..++...++... +++++++||++|.|++
T Consensus        78 lv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (178)
T 2iwr_A           78 FVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD  157 (178)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHH
Confidence            9999999999999999766664432   3589999999999993  45667788888888876 5899999999999999


Q ss_pred             HHHHHHHHHHHHhhc
Q psy2300         173 GVFERLVDIICDKMS  187 (221)
Q Consensus       173 ~l~~~i~~~~~~~~~  187 (221)
                      ++|++|.+.+.+...
T Consensus       158 ~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          158 RVFQEVAQKVVTLRK  172 (178)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999887654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=4.1e-33  Score=209.62  Aligned_cols=169  Identities=24%  Similarity=0.453  Sum_probs=113.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeeEEEEEEeCCe--EEEEEEEeCCCcccccccchhhccCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD--SFTSAFVSTVGIDFKVKTVFRHDK--RVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ...++|+|+|.+|+|||||+++|++.  .+...+.++.+.++....+..++.  .+.+.+||+||++.+..++..++..+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            56799999999999999999999998  777777788877777778877776  78999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCC---CCCcEEEEEeCCCCCC-CcccCHHHHHHHHHHhCCeEEEEecCC-CC
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSW---DNAQVILVGNKCDMED-ERVISFERGKHLAESLGVEFFETSAKD-NV  169 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~---~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~  169 (221)
                      |++|+|+|++++.++..+..|+..+.....   .+.|+++|+||+|+.+ .+.+..++...++..++++++++||++ |.
T Consensus        98 d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGK  177 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-----
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCc
Confidence            999999999999999999999999988764   5899999999999987 677888889999999999999999999 99


Q ss_pred             CHHHHHHHHHHHHHHhhc
Q psy2300         170 NVKGVFERLVDIICDKMS  187 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~~  187 (221)
                      |++++|++|.+.+.+...
T Consensus       178 gi~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          178 DADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             --CHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHH
Confidence            999999999998876654

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=100.00  E-value=4e-32  Score=204.43  Aligned_cols=165  Identities=25%  Similarity=0.558  Sum_probs=142.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      .+..+||+|+|.+|+|||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||+|++.+..++..++..+|++
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  103 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV  103 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEE
Confidence            45789999999999999999999999998877778877665 34566677789999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhC-CeEEEE
Q psy2300          98 ILMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLG-VEFFET  163 (221)
Q Consensus        98 i~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~  163 (221)
                      |+|||++++.++..+ ..|+..+.... .+.|+++|+||+|+.+.            +.++.++...+++.++ ++++++
T Consensus       104 ilv~D~~~~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~  182 (205)
T 1gwn_A          104 LICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  182 (205)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEEC
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEe
Confidence            999999999999998 67988887664 58999999999999642            4577788889998887 699999


Q ss_pred             ecC-CCCCHHHHHHHHHHHHHH
Q psy2300         164 SAK-DNVNVKGVFERLVDIICD  184 (221)
Q Consensus       164 Sa~-~~~gi~~l~~~i~~~~~~  184 (221)
                      ||+ +|.|++++|++|++.+++
T Consensus       183 SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          183 SALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CTTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeccCCcCHHHHHHHHHHHHhh
Confidence            999 689999999999998765

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=1e-34  Score=217.51  Aligned_cols=169  Identities=49%  Similarity=0.958  Sum_probs=143.3

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ..++.+||+|+|.+|+|||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.+|+
T Consensus        29 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~  108 (199)
T 3l0i_B           29 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG  108 (199)
T ss_dssp             CCSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCE
Confidence            34678999999999999999999999999888888888888888888888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|+|++++.+++.+..|+..+......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|+
T Consensus       109 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~  188 (199)
T 3l0i_B          109 IIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFM  188 (199)
T ss_dssp             EEECC-CCCSHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHH
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            99999999999999999999999877667899999999999987776666677888888999999999999999999999


Q ss_pred             HHHHHHHHh
Q psy2300         177 RLVDIICDK  185 (221)
Q Consensus       177 ~i~~~~~~~  185 (221)
                      +|.+.+.++
T Consensus       189 ~l~~~l~~~  197 (199)
T 3l0i_B          189 TMAAEIKKR  197 (199)
T ss_dssp             HHTTTTTTT
T ss_pred             HHHHHHHHh
Confidence            998776543

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=100.00  E-value=1e-32  Score=209.76  Aligned_cols=172  Identities=27%  Similarity=0.533  Sum_probs=151.5

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      .+......+||+|+|.+|+|||||+++|+.+.+...+.++.+.++.......++..+.+.+|||+|++.+..++..++..
T Consensus         8 ~~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   87 (221)
T 3gj0_A            8 AQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQ   87 (221)
T ss_dssp             STTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTT
T ss_pred             cCCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhc
Confidence            34455678999999999999999999988887777788899999999999889899999999999999999999999999


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      +|++++|||++++.++..+..|+..+.... .+.|+++|+||+|+.+....  .+...++...+++++++||++|.|+++
T Consensus        88 ~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~  164 (221)
T 3gj0_A           88 AQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEK  164 (221)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSSC--GGGCCHHHHHTCEEEECBGGGTBTTTH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECCcccccccc--HHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999999999999987764 58999999999999764432  245567778899999999999999999


Q ss_pred             HHHHHHHHHHHhhcc
Q psy2300         174 VFERLVDIICDKMSE  188 (221)
Q Consensus       174 l~~~i~~~~~~~~~~  188 (221)
                      +|++|.+.+......
T Consensus       165 l~~~l~~~l~~~~~~  179 (221)
T 3gj0_A          165 PFLWLARKLIGDPNL  179 (221)
T ss_dssp             HHHHHHHHHHTCTTC
T ss_pred             HHHHHHHHHHhCccc
Confidence            999999998776543

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=100.00  E-value=4.9e-31  Score=195.79  Aligned_cols=167  Identities=32%  Similarity=0.542  Sum_probs=134.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      -..++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   97 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   97 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSEEE
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEE
Confidence            3579999999999999999999999887766666665443 355666778889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.. +....++...+++..+++++++||++|.|++++|++
T Consensus        98 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  176 (190)
T 3con_A           98 CVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYT  176 (190)
T ss_dssp             EEEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHH
Confidence            9999999999999998988886654 24799999999999976 456678888999999999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy2300         178 LVDIICDKMS  187 (221)
Q Consensus       178 i~~~~~~~~~  187 (221)
                      |.+.+.+.+.
T Consensus       177 l~~~~~~~~~  186 (190)
T 3con_A          177 LVREIRQYRM  186 (190)
T ss_dssp             HHHHHHHHC-
T ss_pred             HHHHHHHHHH
Confidence            9999887654

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=100.00  E-value=3e-31  Score=198.90  Aligned_cols=164  Identities=29%  Similarity=0.550  Sum_probs=143.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|.+|+|||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            46799999999999999999999999987777777776654 34566778889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|||++++.++..+ ..|+..+.... .+.|+++|+||+|+...            +.+..++...++...+. +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECS  180 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEee
Confidence            99999999999998 56888887654 58999999999999764            44677788888888887 899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~  184 (221)
                      |++|.|++++|++|.+.+.+
T Consensus       181 A~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          181 AKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999987753

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=100.00  E-value=1.7e-31  Score=197.32  Aligned_cols=163  Identities=28%  Similarity=0.565  Sum_probs=141.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+|+|.+|+|||||+++|+++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|++++
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   82 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLI   82 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEE
Confidence            569999999999999999999999988777777776444 4455678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEec
Q psy2300         100 MYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSA  165 (221)
Q Consensus       100 v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa  165 (221)
                      |+|++++.++..+. .|+..+.... .+.|+++|+||+|+.+.            +.+..++...++...+. +++++||
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  161 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhC-CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecC
Confidence            99999999999997 5888887764 48999999999998653            45677788888888887 9999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~~~~  184 (221)
                      ++|.|++++|++|.+.+.+
T Consensus       162 ~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          162 LTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             TTCTTHHHHHHHHHHHHSC
T ss_pred             CCccCHHHHHHHHHHHHhc
Confidence            9999999999999988754

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=100.00  E-value=1.7e-31  Score=202.20  Aligned_cols=166  Identities=30%  Similarity=0.605  Sum_probs=123.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|++..+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..++..+|+++
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            3579999999999999999999999888776677665443 455667888889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|||++++.++..+. .|+..+.... .+.|+++|+||+|+....            .++.++...+++..++ +++++|
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  189 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECS  189 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECB
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEec
Confidence            999999999999997 5888887654 579999999999996543            5667788888888897 999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhh
Q psy2300         165 AKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |++|.|++++|++|.+.+.+..
T Consensus       190 A~~g~gi~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          190 ARLHDNVHAVFQEAAEVALSSR  211 (214)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHC-
T ss_pred             CCCCCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999887654

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.9e-32  Score=197.11  Aligned_cols=163  Identities=28%  Similarity=0.490  Sum_probs=139.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+|+|.+|+|||||+++|++..+...+.++.+.++. .....++..+.+.+||+||++.+..++..++..+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            4689999999999999999999998877777777665543 344567777899999999999999889999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |+|++++.+++.+..|+..+....  ..+.|+++|+||+|+...+.+...+...++...+++++++||++|.|++++|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHH
Confidence            999999999999888888776543  247999999999999776777778888888889999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         178 LVDIIC  183 (221)
Q Consensus       178 i~~~~~  183 (221)
                      |.+.+.
T Consensus       161 l~~~~~  166 (172)
T 2erx_A          161 LLNLEK  166 (172)
T ss_dssp             HHHTCC
T ss_pred             HHHHHh
Confidence            987654

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=4.8e-31  Score=198.66  Aligned_cols=166  Identities=28%  Similarity=0.540  Sum_probs=137.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|.+|+|||||+++|++..+...+.++.+..+.. .+..++..+.+.+|||||++.+..++..++..+|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEE-EEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEE-EEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            357899999999999999999999998877777777655543 3567778889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|+|++++.++..+ ..|+..+.... ++.|+++|+||+|+.+.            +.+..++...++...+. +++++|
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECS  180 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEee
Confidence            99999999999998 56888887654 58999999999999654            34667778888888887 899999


Q ss_pred             cCCCCCHHHHHHHHHHHHHHhh
Q psy2300         165 AKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      |++|.|++++|++|.+.+.+..
T Consensus       181 A~~g~gi~el~~~l~~~i~~~~  202 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQKR  202 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHSCC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887543

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=100.00  E-value=9.7e-31  Score=189.33  Aligned_cols=162  Identities=32%  Similarity=0.547  Sum_probs=140.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .++|+++|.+|+|||||+++|.+..+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            48999999999999999999999987766666665433 45566677888999999999999998899999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +|++++.++..+..|+..+.... ..+.|+++|+||+|+.. +....++...+++.++++++++||++|.|++++|++|.
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           82 FAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            99999999999999998886654 24799999999999976 44567788889999999999999999999999999999


Q ss_pred             HHHHH
Q psy2300         180 DIICD  184 (221)
Q Consensus       180 ~~~~~  184 (221)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T 2ce2_X          161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88754

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.98  E-value=5.3e-32  Score=201.78  Aligned_cols=167  Identities=19%  Similarity=0.298  Sum_probs=136.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-----------cccceeeeeEEEEE-EeCCeEEEEEEEeCCCccccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-----------FVSTVGIDFKVKTV-FRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-----------~~~~~~~~~~~~~~-~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ..+..+||+|+|.+|+|||||++.+.+. +...           +.++.+.++....+ ..++..+.+.+|||||++.+.
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~~-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYSK-VPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHHT-SCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH
Confidence            4467899999999999999999766554 3333           23455555554444 556778899999999999999


Q ss_pred             ccchhhccCCcEEEEEEECC------ChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC
Q psy2300          85 TITTAYYRGAMGFILMYDVT------NEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV  158 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~------~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  158 (221)
                      .++..+++.+|++|+|||++      +..++..+..|+..+. ....+.|+++|+||+|+.+.  +..++...++...++
T Consensus        89 ~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~-~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~  165 (198)
T 3t1o_A           89 ASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYG-LTLDDVPIVIQVNKRDLPDA--LPVEMVRAVVDPEGK  165 (198)
T ss_dssp             HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTT-CCTTSSCEEEEEECTTSTTC--CCHHHHHHHHCTTCC
T ss_pred             HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhc-cccCCCCEEEEEEchhcccc--cCHHHHHHHHHhcCC
Confidence            99999999999999999999      4567777777777763 23468999999999999664  677888899998998


Q ss_pred             -eEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         159 -EFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       159 -~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                       +++++||++|.|++++|++|.+.+.++..
T Consensus       166 ~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          166 FPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             SCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             ceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence             99999999999999999999999988764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.98  E-value=2.1e-31  Score=199.02  Aligned_cols=169  Identities=15%  Similarity=0.239  Sum_probs=129.6

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY   90 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~   90 (221)
                      .....+..+.++|+|+|.+|||||||+++|++..+.. .+.++.+.....  +.  ...+.+.+|||+|++.+..++..+
T Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~--~~--~~~~~~~i~Dt~G~~~~~~~~~~~   83 (199)
T 4bas_A            8 HHHMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVET--FE--KGRVAFTVFDMGGAKKFRGLWETY   83 (199)
T ss_dssp             --------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEEE--EE--ETTEEEEEEEECCSGGGGGGGGGG
T ss_pred             cccccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEEE--EE--eCCEEEEEEECCCCHhHHHHHHHH
Confidence            3445666789999999999999999999999999877 677877744433  32  344789999999999999999999


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC--------CCCCcEEEEEeCCCCCCCcccCHHHHHH------HHHHh
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYS--------WDNAQVILVGNKCDMEDERVISFERGKH------LAESL  156 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~--------~~~~p~ivv~nK~Dl~~~~~~~~~~~~~------~~~~~  156 (221)
                      ++.+|++|+|||++++.+|..+..|+..+....        ..+.|++||+||+|+.+...  .++...      ++...
T Consensus        84 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~  161 (199)
T 4bas_A           84 YDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDH  161 (199)
T ss_dssp             CTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTS
T ss_pred             HhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCC
Confidence            999999999999999999999988888875531        12799999999999976532  122111      11335


Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         157 GVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      +++++++||++|.|++++|++|.+.+.++.
T Consensus       162 ~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          162 PFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             eeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            678999999999999999999999988764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.98  E-value=4.6e-32  Score=199.78  Aligned_cols=163  Identities=34%  Similarity=0.675  Sum_probs=126.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|++|+|||||+++|.+..+...+.++.+..+. ..+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            35699999999999999999999999887777776654433 22334556678899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcc----------cCHHHHHHHHHHhCC-eEEEEecC
Q psy2300          99 LMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERV----------ISFERGKHLAESLGV-EFFETSAK  166 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~  166 (221)
                      +|+|++++.+++.+. .|+..+.... .+.|+++|+||+|+.+.+.          +..++...++..++. +++++||+
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  163 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSK  163 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECC
Confidence            999999999999997 5888887764 4899999999999866544          367788888888896 99999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDIIC  183 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~  183 (221)
                      +|.|++++|++|.+.+.
T Consensus       164 ~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          164 SQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             TCTTHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999988764

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.98  E-value=1.5e-30  Score=193.83  Aligned_cols=167  Identities=23%  Similarity=0.367  Sum_probs=135.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-ccccchhhccCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-YRTITTAYYRGAM   95 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-~~~~~~~~~~~~d   95 (221)
                      .+.+||+|+|.+|||||||+++|++..  +... .++.+.++....+.+++..+.+.+|||+|.+. +..++..+++.+|
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~   82 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSD-XEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGD   82 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCS
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCcc-ccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCC
Confidence            457999999999999999999999643  3232 34456666667777888888999999999776 5556777888999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++++|||++++.+|+.+..|...+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++
T Consensus        83 ~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           83 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHH
Confidence            9999999999999999999988776543 357999999999999766667777777888888899999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy2300         175 FERLVDIICDKM  186 (221)
Q Consensus       175 ~~~i~~~~~~~~  186 (221)
                      |++|.+.+....
T Consensus       163 f~~l~~~~~~~~  174 (192)
T 2cjw_A          163 FEGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999886554

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.97  E-value=5.2e-31  Score=198.11  Aligned_cols=162  Identities=28%  Similarity=0.568  Sum_probs=137.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|.+|+|||||+++|+.+.+...+.++.+. .....+..++..+.+.+|||||++.+..++..++..+|+++
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  106 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  106 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSEE-EEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeecc-eeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            35799999999999999999999999887777777653 33455666777889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCcc------------cCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDERV------------ISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~------------~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|||++++.++..+. .|+..+.... .+.|+++|+||+|+.+...            +..++...++...+. +++++|
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  185 (204)
T 4gzl_A          107 ICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEee
Confidence            999999999999997 6888887765 6899999999999865433            667788888888886 699999


Q ss_pred             cCCCCCHHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDII  182 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~  182 (221)
                      |++|.|++++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             TTTCTTHHHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHh
Confidence            999999999999998754

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=7.7e-30  Score=190.92  Aligned_cols=168  Identities=38%  Similarity=0.740  Sum_probs=149.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ++.++|+|+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+||++|++.+..++..++..+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            56899999999999999999999999887778888888888888888888899999999999999888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|+.+..++.++..|+..+......+.|+++++||+|+.+.+....+++..++...++.++++|++++.|++++|++|
T Consensus        83 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l  162 (199)
T 2f9l_A           83 LVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI  162 (199)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            99999999999998888888766554678999999999997766677788888999999999999999999999999999


Q ss_pred             HHHHHHhh
Q psy2300         179 VDIICDKM  186 (221)
Q Consensus       179 ~~~~~~~~  186 (221)
                      .+.+.+..
T Consensus       163 ~~~~~~~~  170 (199)
T 2f9l_A          163 LTEIYRIV  170 (199)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988765

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.97  E-value=2.3e-30  Score=192.27  Aligned_cols=173  Identities=16%  Similarity=0.270  Sum_probs=128.6

Q ss_pred             cchhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCC-CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300           6 ETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDS-FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ..++-.+.........++|+|+|.+|+|||||+++|++.. +...+.++.+  .....+..++  +.+.+|||+|++.+.
T Consensus         6 ~~~~~~~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~--~~~~~~~~~~--~~~~l~Dt~G~~~~~   81 (190)
T 2h57_A            6 HHHHHSSGLVPRGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQGRYR   81 (190)
T ss_dssp             ---------------CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSS--EEEEEEECSS--CEEEEEEECCSTTTG
T ss_pred             cccccccCcccCCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCccc--eeEEEEEECC--EEEEEEECCCCHHHH
Confidence            3344444455555678999999999999999999999887 5556666666  3344444443  689999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC---CCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----Hh
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW---DNAQVILVGNKCDMEDERVISFERGKHLAE-----SL  156 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~  156 (221)
                      .++..++..+|++++|+|++++.++..+..|+..+.....   .+.|+++|+||+|+.+.  ...++...+..     ..
T Consensus        82 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~  159 (190)
T 2h57_A           82 NLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDK  159 (190)
T ss_dssp             GGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSS
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCC
Confidence            9999999999999999999999999999888888766532   48999999999999653  34455555543     23


Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         157 GVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      +++++++||++|.|++++|++|.+.+.+
T Consensus       160 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          160 PWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             ceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            5689999999999999999999887643

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.97  E-value=6.9e-31  Score=193.73  Aligned_cols=173  Identities=16%  Similarity=0.271  Sum_probs=124.8

Q ss_pred             CCcCcchhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300           2 AGVGETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      .+....++-....+.+....++|+|+|.+|+|||||+++|++..+ ..+.++.+....  .+..++  +.+.+||++|++
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~~--~~~~~~--~~~~i~Dt~G~~   76 (181)
T 2h17_A            2 GSSHHHHHHSSGLVPRGSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE--EIVINN--TRFLMWDIGGQE   76 (181)
T ss_dssp             -------------------CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSSSSCE--EEEETT--EEEEEEEESSSG
T ss_pred             CcccccccccCCccCCCCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCceeeE--EEEECC--EEEEEEECCCCH
Confidence            344455555666666667899999999999999999999999987 556666665443  343443  789999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----H
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAE-----S  155 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~  155 (221)
                      .+..++..++..+|++++|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...++......     .
T Consensus        77 ~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~  154 (181)
T 2h17_A           77 SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKD  154 (181)
T ss_dssp             GGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCS
T ss_pred             hHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccC
Confidence            999999999999999999999999999999988887775532 358999999999999653  23333333321     2


Q ss_pred             hCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         156 LGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       156 ~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .+++++++||++|.|++++|++|.+.
T Consensus       155 ~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          155 HQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             CceEEEEccCCCCcCHHHHHHHHHhh
Confidence            34589999999999999999998754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.97  E-value=4.9e-31  Score=195.70  Aligned_cols=167  Identities=20%  Similarity=0.365  Sum_probs=129.1

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhc
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYY   91 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~   91 (221)
                      ..........++|+|+|.+|+|||||+++|++..+...+.++.+.++..  +..  ..+.+.+||+||++.+..++..++
T Consensus        13 ~~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~--~~~~~~l~Dt~G~~~~~~~~~~~~   88 (188)
T 1zd9_A           13 GLVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITK--GNVTIKLWDIGGQPRFRSMWERYC   88 (188)
T ss_dssp             ------CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEE--TTEEEEEEEECCSHHHHTTHHHHH
T ss_pred             cccccCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--EEe--CCEEEEEEECCCCHhHHHHHHHHH
Confidence            3344444568999999999999999999999998877777887766553  322  347899999999999999999999


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEec
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSA  165 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa  165 (221)
                      ..+|++++|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+..  ..++......     ..+++++++||
T Consensus        89 ~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA  166 (188)
T 1zd9_A           89 RGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISC  166 (188)
T ss_dssp             TTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCT
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEEC
Confidence            99999999999999999999988888775432 2589999999999996542  2222222111     12457999999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~~~~  184 (221)
                      ++|.|++++|++|.+.+.+
T Consensus       167 ~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          167 KEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             TTCTTHHHHHHHHHHTCC-
T ss_pred             CCCCCHHHHHHHHHHHHHh
Confidence            9999999999999886643

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.97  E-value=2.7e-30  Score=188.32  Aligned_cols=159  Identities=22%  Similarity=0.356  Sum_probs=126.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|.+..+. .+.++.+...  ..+..+  .+.+.+||+||++.+..++..+++.+|+++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   79 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVI   79 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEE
Confidence            45699999999999999999999998864 4556665443  344444  468999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHH-----HHHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHL-----AESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+...  ..+....     +...+++++++||++|.|++
T Consensus        80 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  157 (171)
T 1upt_A           80 YVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLD  157 (171)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHH
Confidence            9999999999999988887765432 25899999999999966432  2222221     22235689999999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2300         173 GVFERLVDIICD  184 (221)
Q Consensus       173 ~l~~~i~~~~~~  184 (221)
                      ++|++|.+.+.+
T Consensus       158 ~l~~~l~~~i~~  169 (171)
T 1upt_A          158 EAMEWLVETLKS  169 (171)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhh
Confidence            999999988754

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.97  E-value=4.5e-29  Score=185.68  Aligned_cols=168  Identities=39%  Similarity=0.773  Sum_probs=149.7

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ..+.++.++|+|+|++|||||||+++|++..++..+.++.+.++....+.+++..+.+.+||++|.+.+..++..++..+
T Consensus        23 ~~~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~  102 (191)
T 1oix_A           23 DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGA  102 (191)
T ss_dssp             -CCCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTC
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcC
Confidence            34556789999999999999999999999998888889999888888888898888899999999999888888899999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +++++|+|+.+..+++++..|+..+........|+++++||+|+.+.+....++++.++...++.++++|++++.|++++
T Consensus       103 ~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l  182 (191)
T 1oix_A          103 VGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA  182 (191)
T ss_dssp             CEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999998888888776655457899999999999776667778888999999999999999999999999


Q ss_pred             HHHHHHHH
Q psy2300         175 FERLVDII  182 (221)
Q Consensus       175 ~~~i~~~~  182 (221)
                      |++|.+.+
T Consensus       183 ~~~l~~~i  190 (191)
T 1oix_A          183 FQTILTEI  190 (191)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998765

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.97  E-value=8.9e-31  Score=189.71  Aligned_cols=156  Identities=19%  Similarity=0.377  Sum_probs=121.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|+|||||+++|+++.+.. +.||.+  .....+..  ..+.+.+||+||++.+..++..++..+|++++|+
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~~t~~--~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   75 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TIPTIG--FNVETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CCCCSS--CCEEEEEC--SSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-ccCcCc--eeEEEEEE--CCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999888753 456655  33333333  3478999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      |+++++++..+..|+..+... ...+.|+++|+||+|+.+..  ...+.....     ...+++++++||++|.|++++|
T Consensus        76 d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            999999999998888877543 23589999999999996542  222222211     1124579999999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         176 ERLVDIICD  184 (221)
Q Consensus       176 ~~i~~~~~~  184 (221)
                      ++|.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999987754

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.97  E-value=7e-30  Score=191.12  Aligned_cols=156  Identities=21%  Similarity=0.292  Sum_probs=121.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|++|||||||+++|.++.+. .+.++.+.+.  ..+..++  +.+.+|||||++.+..++..+++.+|+++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i   97 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   97 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEE
Confidence            34689999999999999999999988763 4566666543  3444554  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-----------------hCCeE
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAES-----------------LGVEF  160 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~  160 (221)
                      +|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+  .++.++...++..                 .++++
T Consensus        98 ~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (198)
T 1f6b_A           98 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  175 (198)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEE
Confidence            999999999999999988887553 235899999999999965  4566666666542                 23579


Q ss_pred             EEEecCCCCCHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ++|||++|.|++++|++|.+.
T Consensus       176 ~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          176 FMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            999999999999999998764

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.97  E-value=2.1e-29  Score=186.36  Aligned_cols=161  Identities=22%  Similarity=0.360  Sum_probs=129.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|++|+|||||+++|++.. ...+.++.+...  ..+..+  .+.+.+|||||++.+...+..+++.+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   90 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTISPTLGFNI--KTLEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLI   90 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEE--EEEEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCcccccCccce--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            467999999999999999999999888 566777777443  344444  368999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ..++......     ..+++++++||++|.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (186)
T 1ksh_A           91 WVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLL  168 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHH
Confidence            999999999999998888777553 23579999999999996643  2333333222     235689999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+.+++
T Consensus       169 ~l~~~l~~~i~~~~  182 (186)
T 1ksh_A          169 PGIDWLLDDISSRV  182 (186)
T ss_dssp             HHHHHHHHHHHTC-
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887653

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.97  E-value=2.1e-29  Score=187.29  Aligned_cols=155  Identities=19%  Similarity=0.276  Sum_probs=126.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+++|++|+|||||+++|.++.+. .+.++.+.+  ...+..++  +.+.+|||||++.+..++..+++.+|++++
T Consensus        22 ~~~ki~~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   96 (190)
T 1m2o_B           22 KHGKLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVF   96 (190)
T ss_dssp             --CEEEEEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEE
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEE
Confidence            4579999999999999999999998864 456666654  34455554  789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH------------hCCeEEEEecC
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES------------LGVEFFETSAK  166 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa~  166 (221)
                      |+|++++.+++.+..|+..+.... ..+.|+++|+||+|+.+  .++.++..++...            .+++++++||+
T Consensus        97 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  174 (190)
T 1m2o_B           97 LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVV  174 (190)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTT
T ss_pred             EEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECC
Confidence            999999999999999888875532 35899999999999965  3455666555432            34579999999


Q ss_pred             CCCCHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDI  181 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~  181 (221)
                      +|.|++++|++|.+.
T Consensus       175 ~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          175 MRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTBSHHHHHHHHHTT
T ss_pred             cCCCHHHHHHHHHhh
Confidence            999999999998753

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.97  E-value=2.6e-30  Score=192.56  Aligned_cols=158  Identities=21%  Similarity=0.365  Sum_probs=119.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|++|+|||||+++|+.+.+. .+.+|.+  +....+..  ..+.+.+||+||++.+..++..++..+|+++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~--~~~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii  101 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVETVEY--KNICFTVWDVGGQDKIRPLWRHYFQNTQGLI  101 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEEEETT--EEEEEEEE--TTEEEEEEECC-----CTTHHHHHHTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCcc-ccCCcCc--eeEEEEEE--CCEEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            45799999999999999999999988764 3455555  33333433  3378999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+..  ..++......     ..+++++++||++|.|++
T Consensus       102 lv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~  179 (192)
T 2b6h_A          102 FVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLY  179 (192)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHH
Confidence            999999999999998888877543 23579999999999996542  2222222111     123579999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         173 GVFERLVDIIC  183 (221)
Q Consensus       173 ~l~~~i~~~~~  183 (221)
                      ++|++|.+.+.
T Consensus       180 ~l~~~l~~~i~  190 (192)
T 2b6h_A          180 DGLDWLSHELS  190 (192)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            99999988764

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.97  E-value=7.1e-30  Score=190.68  Aligned_cols=171  Identities=20%  Similarity=0.226  Sum_probs=121.3

Q ss_pred             chhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeee--EEEEEEeC-CeEEEEEEEeCCCcccc
Q psy2300           7 TKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDF--KVKTVFRH-DKRVKLQIWDTAGQERY   83 (221)
Q Consensus         7 ~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~-~~~~~~~i~D~~g~~~~   83 (221)
                      .+...+..+.+.+..+||+|+|.+|||||||++++.+.. ...  ++.+.+.  ......+. +..+.+.+||++|++.+
T Consensus         6 ~~~~~~~~~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~-~~~--~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~   82 (196)
T 3llu_A            6 HHSSGRENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKM-SPN--ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDF   82 (196)
T ss_dssp             --------------CCEEEEEESTTSSHHHHHHHHHSCC-CGG--GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCT
T ss_pred             cccCCCCCCcccCcceEEEEECCCCCCHHHHHHHHHhcC-CCc--ceeeeccccceeeeeccCCCeeEEEEEECCCCHHH
Confidence            333445566677789999999999999999999887753 233  3333332  23333332 45578999999999998


Q ss_pred             cccc---hhhccCCcEEEEEEECCCh--hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC-------CcccCHHHHHH
Q psy2300          84 RTIT---TAYYRGAMGFILMYDVTNE--ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED-------ERVISFERGKH  151 (221)
Q Consensus        84 ~~~~---~~~~~~~d~vi~v~d~~~~--~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~-------~~~~~~~~~~~  151 (221)
                      ....   ..+++.+|++|+|||++++  +++..+..|+..+... ..+.|+++|+||+|+.+       .+.+..++...
T Consensus        83 ~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~  161 (196)
T 3llu_A           83 FDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDD  161 (196)
T ss_dssp             TCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHH-CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHH
T ss_pred             HhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhc-CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHH
Confidence            7766   7899999999999999997  6677777777776433 25899999999999854       23444555667


Q ss_pred             HHH----HhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         152 LAE----SLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       152 ~~~----~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++.    ..+++++++||++ .|++++|+.|++.+
T Consensus       162 ~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          162 LADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             HHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            777    5678999999999 99999999998764

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=2.7e-29  Score=186.03  Aligned_cols=158  Identities=17%  Similarity=0.317  Sum_probs=124.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|+++.+. .+.++.+.+.  ..+..++  +.+.+|||||++.+..++..++..+|+++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   88 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNV--EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   88 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEECCSCSSC--EEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCCccce--EEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEE
Confidence            45799999999999999999999988875 5666666443  3343443  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++++++..+..|+..+.... ..+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (187)
T 1zj6_A           89 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLC  166 (187)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHH
Confidence            9999999999999999888876542 258999999999999653  23344443332     235689999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         173 GVFERLVDIIC  183 (221)
Q Consensus       173 ~l~~~i~~~~~  183 (221)
                      ++|++|.+.+.
T Consensus       167 ~l~~~l~~~~~  177 (187)
T 1zj6_A          167 QGLEWMMSRLK  177 (187)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=5.4e-30  Score=190.08  Aligned_cols=161  Identities=19%  Similarity=0.310  Sum_probs=126.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|++|+|||||+++|..+.+. .+.++.+..  ...+..+  .+.+.+|||||++.+..++..+++.+|+++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~t~~~~--~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii   94 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVV-TTVPTVGVN--LETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVI   94 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCE-EECSSTTCC--EEEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCC-CcCCCCceE--EEEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEE
Confidence            46799999999999999999999988764 355665533  3344444  468999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++++++..+..|+..+.... ..+.|+++|+||+|+.+...  .++.....     ...+++++++||++|.|++
T Consensus        95 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (189)
T 2x77_A           95 YVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLV  172 (189)
T ss_dssp             EEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHH
Confidence            9999999999999988887765432 35899999999999966432  22222211     2234579999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|.+.+.++.
T Consensus       173 ~l~~~l~~~i~~~~  186 (189)
T 2x77_A          173 EGMDWLVERLREQG  186 (189)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999886643

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.96  E-value=3e-29  Score=185.02  Aligned_cols=160  Identities=21%  Similarity=0.301  Sum_probs=124.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|++|+|||||+++|.+..+ ..+.++.+.+  ...+..+  .+.+.+||++|++.+...+..++..+|+++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~--~~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   88 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFN--IKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILI   88 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCC-EEEEEETTEE--EEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCC-CcccCcCCeE--EEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            4679999999999999999999998864 3455666643  3344444  478999999999999988999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++..+..|+..+... ...+.|+++|+||+|+.+...  .++......     ..+++++++||++|.|++
T Consensus        89 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (181)
T 1fzq_A           89 YVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (181)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHH
Confidence            999999999999998888776432 235799999999999976532  233322211     124579999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      ++|++|.+.+.++
T Consensus       167 ~l~~~l~~~~~~~  179 (181)
T 1fzq_A          167 DGMNWVCKNVNAK  179 (181)
T ss_dssp             HHHHHHHHTC---
T ss_pred             HHHHHHHHHHHhc
Confidence            9999998876543

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.96  E-value=2e-28  Score=196.62  Aligned_cols=164  Identities=27%  Similarity=0.577  Sum_probs=142.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+++|.+|+|||||+++++++.+...+.++.+..+ ...+..++..+.+.+||+||++.+..++..++..+|+++
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i  231 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  231 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEE
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEE
Confidence            3569999999999999999999999988777777776444 445667788889999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|||++++.++..+. .|+..+.... .+.|+++|+||+|+.+.            +.+..++...++...++ +++++|
T Consensus       232 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  310 (332)
T 2wkq_A          232 ICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  310 (332)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEEeCCCHHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEec
Confidence            999999999999987 5888887654 48999999999998543            45777888899999997 999999


Q ss_pred             cCCCCCHHHHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~~  184 (221)
                      |++|.|++++|++|.+.+.+
T Consensus       311 a~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          311 ALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCcCHHHHHHHHHHHHhc
Confidence            99999999999999988754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.96  E-value=5.8e-30  Score=189.32  Aligned_cols=164  Identities=24%  Similarity=0.414  Sum_probs=122.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC--CCCCccccceeeeeEEEEEEe---CCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD--SFTSAFVSTVGIDFKVKTVFR---HDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      .+||+|+|++|||||||+++|++.  .+...+.++.+.++....+..   ++..+.+.+|||+|++.+..++..++..++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            489999999999999999999985  455556777777766555443   234678999999999999999999999999


Q ss_pred             EEEEEEECCCh-hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC---HHHHHHHHHHhCCe----EEEEecCC
Q psy2300          96 GFILMYDVTNE-ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS---FERGKHLAESLGVE----FFETSAKD  167 (221)
Q Consensus        96 ~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~----~~~~Sa~~  167 (221)
                      ++++|+|++++ .++..+..|+..+.... .+.|+++|+||+|+.+.+.+.   .+....++..++++    ++++||++
T Consensus        82 ~~i~v~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  160 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATE  160 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTS
T ss_pred             EEEEEEeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEeccc
Confidence            99999999997 57889989998886653 479999999999997654432   22334555556775    99999999


Q ss_pred             CC-CHHHHHHHHHHHHHHh
Q psy2300         168 NV-NVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~-gi~~l~~~i~~~~~~~  185 (221)
                      |. |++++++.|.+.+.+.
T Consensus       161 ~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          161 ESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             CCHHHHHHHHHHHHHHHCC
T ss_pred             CchhHHHHHHHHHHHHhcc
Confidence            97 9999999988877543

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=7.8e-29  Score=182.64  Aligned_cols=160  Identities=21%  Similarity=0.360  Sum_probs=124.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|++|+|||||+++++++.+ ..+.++.+...  ..+..++  +.+.+||+||++.+...+..++..+|+++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   90 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNV--ETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVI   90 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECSSTTCCE--EEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCCcCccce--EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            4679999999999999999999998876 55566666433  3444443  78999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-----hCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAES-----LGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|++++.++..+..|+..+.... ..+.|+++|+||+|+.+.  ...++.......     .+++++++||++|.|++
T Consensus        91 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (183)
T 1moz_A           91 FVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGIT  168 (183)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHH
Confidence            9999999999999999888876543 368999999999999654  233343333221     23479999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      ++|++|.+.+.++
T Consensus       169 ~l~~~l~~~~~~~  181 (183)
T 1moz_A          169 EGLDWLIDVIKEE  181 (183)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988654

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.93  E-value=2.7e-31  Score=199.48  Aligned_cols=162  Identities=28%  Similarity=0.605  Sum_probs=135.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|+++.+...+.++.+..+ ...+..++..+.+.+|||||++.+..++..++..+|+++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            4579999999999999999999999887766666665433 334455666788999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc------------ccCHHHHHHHHHHhCC-eEEEEe
Q psy2300          99 LMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER------------VISFERGKHLAESLGV-EFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~S  164 (221)
                      +|+|++++.++..+. .|+..+.... .+.|+++|+||+|+.+..            .+..++...+++..++ +++++|
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vS  185 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
Confidence            999999999999987 6877776543 379999999999996542            4555667777777887 899999


Q ss_pred             cCCCCCHHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDII  182 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~  182 (221)
                      |++|.|++++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999998765

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.95  E-value=4.3e-29  Score=193.86  Aligned_cols=167  Identities=26%  Similarity=0.395  Sum_probs=123.9

Q ss_pred             hcCCCeeeEEEEEcCC---------CCCHHHHHHHHhc---CCCCCccccce-eeeeEEEEE--------------EeCC
Q psy2300          15 DQNFDYMFKLLIIGNS---------SVGKTSFLFRYAD---DSFTSAFVSTV-GIDFKVKTV--------------FRHD   67 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~---------~~GKSsli~~l~~---~~~~~~~~~~~-~~~~~~~~~--------------~~~~   67 (221)
                      .......+||+|+|.+         |||||||+++|++   ..+...+.++. +.++....+              .+++
T Consensus        13 ~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   92 (255)
T 3c5h_A           13 NLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDC   92 (255)
T ss_dssp             TSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC------
T ss_pred             CCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCC
Confidence            3445678999999999         9999999999999   45555555554 333221111              1345


Q ss_pred             eEEEEEEEe-----------------------CCCcccccccchhhcc---------------------CCcEEEEEEEC
Q psy2300          68 KRVKLQIWD-----------------------TAGQERYRTITTAYYR---------------------GAMGFILMYDV  103 (221)
Q Consensus        68 ~~~~~~i~D-----------------------~~g~~~~~~~~~~~~~---------------------~~d~vi~v~d~  103 (221)
                      ..+.+.+||                       ++|++.+..++..++.                     ++|++|+|||+
T Consensus        93 ~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~  172 (255)
T 3c5h_A           93 VECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDV  172 (255)
T ss_dssp             ---CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEEC
T ss_pred             cEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEEC
Confidence            668899999                       6677777777777776                     79999999999


Q ss_pred             CCh--hhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-hCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         104 TNE--ESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       104 ~~~--~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      +++  .+++.+..|+..+... ...+.|++||+||+|+...+.+  ++...++.. .+++++++||++|.|++++|++|.
T Consensus       173 t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~  250 (255)
T 3c5h_A          173 SRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLV  250 (255)
T ss_dssp             BC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHH
T ss_pred             CCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHH
Confidence            998  9999999999888654 2357999999999999654443  566677765 478999999999999999999998


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      +.+.
T Consensus       251 ~~l~  254 (255)
T 3c5h_A          251 QLID  254 (255)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            8763

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.95  E-value=2.8e-27  Score=180.65  Aligned_cols=166  Identities=19%  Similarity=0.199  Sum_probs=116.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc------ccc---cccchh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ------ERY---RTITTA   89 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~------~~~---~~~~~~   89 (221)
                      +..++|+|+|.+|+|||||+++|++..+.....+..+.+.........  ...+.+|||||.      +..   ...+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  104 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHK--LNKYQIIDTPGLLDRAFENRNTIEMTTITA  104 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEET--TEEEEEEECTTTTTSCGGGCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecC--CCeEEEEECCCCcCcccchhhhHHHHHHHH
Confidence            467999999999999999999999987643322222223333333333  367999999998      321   111234


Q ss_pred             hccCCcEEEEEEECCChhhHHH--HHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHH---HHHHHHHHhC--CeEEE
Q psy2300          90 YYRGAMGFILMYDVTNEESFTS--IQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFE---RGKHLAESLG--VEFFE  162 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~--~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~---~~~~~~~~~~--~~~~~  162 (221)
                      ++..+|++|+|+|++++.++..  ...|+..+... ..+.|+++|+||+|+.+.+.+..+   ....++...+  +++++
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV-FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSS  183 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC-C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEE
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHh-hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEE
Confidence            5788899999999999877642  23455555443 247999999999999776666543   4556666666  79999


Q ss_pred             EecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         163 TSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      +||++|.|++++|++|.+.+.+...
T Consensus       184 ~SA~~g~gi~~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          184 FSTLTGVGVEQAKITACELLKNDQA  208 (228)
T ss_dssp             CCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             EecccCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999876643

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.95  E-value=8.7e-28  Score=174.57  Aligned_cols=153  Identities=19%  Similarity=0.215  Sum_probs=113.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc------cchhhcc--
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT------ITTAYYR--   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~~--   92 (221)
                      .++|+++|++|+|||||+++|.+..+.....++.+.+.....+..++  ..+.+|||||++.+..      +...++.  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            48999999999999999999998876555445444444455555544  5799999999887642      3345554  


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      .+|++++|+|+++.+.   ...|+..+...   +.|+++|+||+|+...+.+.. +...++..++++++++||++|.|++
T Consensus        81 ~~~~~i~v~D~~~~~~---~~~~~~~~~~~---~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~  153 (165)
T 2wji_A           81 KPDLVVNIVDATALER---NLYLTLQLMEM---GANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIE  153 (165)
T ss_dssp             CCSEEEEEEETTCHHH---HHHHHHHHHHT---TCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHH
T ss_pred             CCCEEEEEecCCchhH---hHHHHHHHHhc---CCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHH
Confidence            8999999999988543   34466666553   799999999999854333332 3566777788999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      ++|++|.+.+
T Consensus       154 ~l~~~l~~~~  163 (165)
T 2wji_A          154 ELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=4.5e-27  Score=172.33  Aligned_cols=160  Identities=20%  Similarity=0.187  Sum_probs=120.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...++|+|+|.+|+|||||+++|++..+...+.++.+.+.....+..++.  .+.+|||||++.+..++..++..+|+++
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   83 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDIVI   83 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCEEE
Confidence            45789999999999999999999999887766666665555556666554  5789999999999999988999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-------C--CeEEEEecCCCC
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-------G--VEFFETSAKDNV  169 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-------~--~~~~~~Sa~~~~  169 (221)
                      +|+|++++....... ++..+..   .+.|+++|+||+|+.+..   .++........       +  ++++++||++|.
T Consensus        84 ~v~d~~~~~~~~~~~-~l~~~~~---~~~p~ilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  156 (178)
T 2lkc_A           84 LVVAADDGVMPQTVE-AINHAKA---ANVPIIVAINKMDKPEAN---PDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKE  156 (178)
T ss_dssp             EEEETTCCCCHHHHH-HHHHHGG---GSCCEEEEEETTTSSCSC---HHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSH
T ss_pred             EEEECCCCCcHHHHH-HHHHHHh---CCCCEEEEEECccCCcCC---HHHHHHHHHhcCcChhHcCCcccEEEEecCCCC
Confidence            999998843222221 2222222   479999999999996532   22333222222       1  479999999999


Q ss_pred             CHHHHHHHHHHHHHHhhc
Q psy2300         170 NVKGVFERLVDIICDKMS  187 (221)
Q Consensus       170 gi~~l~~~i~~~~~~~~~  187 (221)
                      |++++|++|.+.+.....
T Consensus       157 gv~~l~~~l~~~~~~~~~  174 (178)
T 2lkc_A          157 GLDHLLEMILLVSEMEEL  174 (178)
T ss_dssp             HHHHHHHHHHHHHHHTTT
T ss_pred             CHHHHHHHHHHhhhhhcc
Confidence            999999999998776543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.95  E-value=4.5e-28  Score=194.46  Aligned_cols=158  Identities=18%  Similarity=0.344  Sum_probs=118.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+|+|.+|+|||||+++|.+..+... .+|.+..+  ..+..  ..+.+.||||||++.+..++..+++.+|++|+
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~--~~~~~--~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vil  238 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNV--ETVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF  238 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEE-EEETTEEE--EEEEE--TTEEEEEEECC-----CCSHHHHHTTEEEEEE
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCc-ccccceEE--EEEec--CcEEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            468999999999999999999998886433 34444333  33333  34789999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAE-----SLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  173 (221)
                      |||++++.++..+..|+..+.. ....+.|++||+||+|+.+...  .++......     ..+++++++||++|.|+++
T Consensus       239 V~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            9999999999999887666543 2235899999999999976432  222222221     1235799999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         174 VFERLVDIICD  184 (221)
Q Consensus       174 l~~~i~~~~~~  184 (221)
                      +|++|.+.+.+
T Consensus       317 l~~~l~~~l~~  327 (329)
T 3o47_A          317 GLDWLSNQLRN  327 (329)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHHh
Confidence            99999987754

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.95  E-value=7.8e-27  Score=176.33  Aligned_cols=160  Identities=17%  Similarity=0.239  Sum_probs=112.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe-EEEEEEEeCCCcccccc-cchhhccCCcE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQERYRT-ITTAYYRGAMG   96 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~~-~~~~~~~~~d~   96 (221)
                      ...++|+|+|++|+|||||+++|++..+...+.+ .+....  .+.+++. .+.+.+|||||++.+.. ++..+++.+|+
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   81 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTS-ITDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARA   81 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCC-CSCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCC-cceeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCE
Confidence            3569999999999999999999999987665543 333333  3545543 57899999999998887 78888999999


Q ss_pred             EEEEEECCChh-hHHHHHH-HHHHHHh--hCCCCCcEEEEEeCCCCCCCcccCH--HHHHHHHH----------------
Q psy2300          97 FILMYDVTNEE-SFTSIQD-WITQIKT--YSWDNAQVILVGNKCDMEDERVISF--ERGKHLAE----------------  154 (221)
Q Consensus        97 vi~v~d~~~~~-s~~~~~~-~~~~l~~--~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~----------------  154 (221)
                      +++|+|+++.. ++..... |...+..  ....+.|+++|+||+|+........  +.......                
T Consensus        82 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~  161 (214)
T 2fh5_B           82 VVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSS  161 (214)
T ss_dssp             EEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC---------
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCC
Confidence            99999999853 4555555 4444433  1235799999999999976433211  11111111                


Q ss_pred             -----------------Hh--CCeEEEEecCCC------CCHHHHHHHHHHH
Q psy2300         155 -----------------SL--GVEFFETSAKDN------VNVKGVFERLVDI  181 (221)
Q Consensus       155 -----------------~~--~~~~~~~Sa~~~------~gi~~l~~~i~~~  181 (221)
                                       ..  ++.|++|||++|      .|++++|++|.+.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          162 STAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             ---CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             ccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                             01  557999999999      9999999999875

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.95  E-value=2.7e-27  Score=176.13  Aligned_cols=163  Identities=17%  Similarity=0.187  Sum_probs=113.6

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC----------ccc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG----------QER   82 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~   82 (221)
                      +.+.+.+..++|+|+|.+|+|||||+++|++..+...+.++.+.+........+.   .+.+|||||          ++.
T Consensus        15 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~   91 (195)
T 1svi_A           15 PEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREA   91 (195)
T ss_dssp             GGGSCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHH
T ss_pred             hhhCCCCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHH
Confidence            4455666789999999999999999999999886666677777666665555543   589999999          666


Q ss_pred             ccccchhhccCC---cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--HHHHH-HHHHh
Q psy2300          83 YRTITTAYYRGA---MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--ERGKH-LAESL  156 (221)
Q Consensus        83 ~~~~~~~~~~~~---d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~-~~~~~  156 (221)
                      +..++..++..+   |++++|+|++++.++.... +...+..   .+.|+++|+||+|+...+.+..  ++... +....
T Consensus        92 ~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 1svi_A           92 WGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDP  167 (195)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccC
Confidence            777777777766   9999999999877766542 2233333   3799999999999976544332  22222 22223


Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         157 GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +.+++++||++|.|++++|++|.+.+
T Consensus       168 ~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          168 EDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCceEEEEccCCCCHHHHHHHHHHHh
Confidence            57899999999999999999998865

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.94  E-value=1.5e-26  Score=184.08  Aligned_cols=159  Identities=19%  Similarity=0.297  Sum_probs=125.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC---CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc-----cccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT---SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY-----RTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~~~~~~~~   91 (221)
                      ..+||+|+|.+|+|||||+++|+++...   ..+.+|.+..+..  +.+++ .+.+.+||+||++.+     ..++..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            4689999999999999999999887322   1344555544443  33333 578999999999988     67888899


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCC--Ccc----cCHHHHHHHHHHhC---CeE
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMED--ERV----ISFERGKHLAESLG---VEF  160 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~--~~~----~~~~~~~~~~~~~~---~~~  160 (221)
                      +.+|++|+|+|++++.+++++..|...+....  .++.|+++|+||+|+.+  .+.    +..++...++..++   +++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~  158 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIG  158 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEE
T ss_pred             ccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEE
Confidence            99999999999999999999977765553321  36899999999999976  333    45577788888887   799


Q ss_pred             EEEecCCCCCHHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +++||++ .|+.++|..+++.+
T Consensus       159 ~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          159 FPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             EECCTTS-SHHHHHHHHHHHTT
T ss_pred             EEeeecC-ChHHHHHHHHHHHH
Confidence            9999999 89999998887654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.94  E-value=1.6e-26  Score=170.97  Aligned_cols=158  Identities=19%  Similarity=0.198  Sum_probs=121.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc------ccchhhcc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR------TITTAYYR-   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~-   92 (221)
                      ..++|+|+|++|+|||||+++|++..+.....++.+.+.....+..++  ..+.+|||||.+.+.      .++..++. 
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   83 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIIN   83 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHhc
Confidence            468999999999999999999998775555555555555555555543  679999999988764      33445554 


Q ss_pred             -CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          93 -GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        93 -~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                       .+|++++|+|.++   ++....|+..+..   .+.|+++|+||+|+.....+. .....++...+++++++||++|.|+
T Consensus        84 ~~~~~~i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v  156 (188)
T 2wjg_A           84 EKPDLVVNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGI  156 (188)
T ss_dssp             HCCSEEEEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSH
T ss_pred             cCCCEEEEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCH
Confidence             5999999999875   4555667766655   379999999999985443333 3456777788899999999999999


Q ss_pred             HHHHHHHHHHHHHhh
Q psy2300         172 KGVFERLVDIICDKM  186 (221)
Q Consensus       172 ~~l~~~i~~~~~~~~  186 (221)
                      +++|++|.+.+.+..
T Consensus       157 ~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          157 EELKKAISIAVKDKK  171 (188)
T ss_dssp             HHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999998876543

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.94  E-value=9.5e-27  Score=172.33  Aligned_cols=157  Identities=22%  Similarity=0.277  Sum_probs=115.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC-----------cccccccchhh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG-----------QERYRTITTAY   90 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g-----------~~~~~~~~~~~   90 (221)
                      ++|+|+|.+|+|||||+++|++..+...+.++.+  .........    .+.+|||||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~t--~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVT--RKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTCT--TSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCcc--ceeEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            6899999999999999999999987666555443  333333333    588999999           56666667777


Q ss_pred             ccC-CcEEEEEEECCChhhHHHH-HHHHHH---------HHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCe
Q psy2300          91 YRG-AMGFILMYDVTNEESFTSI-QDWITQ---------IKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVE  159 (221)
Q Consensus        91 ~~~-~d~vi~v~d~~~~~s~~~~-~~~~~~---------l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  159 (221)
                      ++. ++++++|+++.|..++..+ ..|...         +......+.|+++|+||+|+....   .+....++..++.+
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~  152 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVP  152 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhh
Confidence            766 7766666666666777665 345432         111112479999999999997654   45677777877764


Q ss_pred             -------EEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         160 -------FFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       160 -------~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                             ++++||++|.|++++|++|.+.+.+...
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence                   7999999999999999999998876543

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.94  E-value=5.9e-26  Score=180.64  Aligned_cols=164  Identities=17%  Similarity=0.140  Sum_probs=124.6

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe-EEEEEEEeCCCccccc----------
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-RVKLQIWDTAGQERYR----------   84 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~g~~~~~----------   84 (221)
                      .+..+.-.|+++|.+|||||||+|+|++..+.. ..+..+++........... ..++.||||||.....          
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i-~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~   83 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSI-ISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMV   83 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSC-CCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccc-cCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHH
Confidence            345678999999999999999999999988642 2233333333332222222 5789999999975433          


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEE
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFE  162 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~  162 (221)
                      ..+..++..+|++++|+|++++.++.+...|+..+...   +.|+++|+||+|+........+....+....+  .++++
T Consensus        84 ~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~---~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~  160 (308)
T 3iev_A           84 EIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPL---NKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVP  160 (308)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGG---CCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEE
T ss_pred             HHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhc---CCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEE
Confidence            45567788999999999999988888877778877764   79999999999997444445566667777765  68999


Q ss_pred             EecCCCCCHHHHHHHHHHHHH
Q psy2300         163 TSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       163 ~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      +||++|.|++++|++|.+.+.
T Consensus       161 vSA~~g~gv~~L~~~l~~~l~  181 (308)
T 3iev_A          161 ISALKGANLDELVKTILKYLP  181 (308)
T ss_dssp             CBTTTTBSHHHHHHHHHHHSC
T ss_pred             EeCCCCCCHHHHHHHHHHhCc
Confidence            999999999999999988763

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.94  E-value=8.2e-26  Score=175.45  Aligned_cols=156  Identities=21%  Similarity=0.195  Sum_probs=117.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc------hhhc-
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT------TAYY-   91 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~------~~~~-   91 (221)
                      ...++|+|+|.+|||||||+++|++..+.....+  +++.......+......+.+|||||...+...+      ..++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~p--g~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWP--GVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECT--TSCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCC--CceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            3579999999999999999999999875444334  334443333333334689999999988766432      4455 


Q ss_pred             -cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          92 -RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        92 -~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                       ..+|++++|+|+++.++..   .|...+...   +.|+++++||+|+...+.+.. +...++..++++++++||++|.|
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~---~~~~~l~~~---~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~g  153 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL---YLLLEILEM---EKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEG  153 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH---HHHHHHHTT---TCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTT
T ss_pred             hcCCCEEEEEeCCCchhhHH---HHHHHHHhc---CCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcC
Confidence             5899999999999865432   355555443   799999999999854443332 35677888899999999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIIC  183 (221)
Q Consensus       171 i~~l~~~i~~~~~  183 (221)
                      ++++|++|.+.+.
T Consensus       154 i~el~~~i~~~~~  166 (258)
T 3a1s_A          154 LEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.93  E-value=8.3e-27  Score=198.51  Aligned_cols=165  Identities=21%  Similarity=0.325  Sum_probs=125.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEE------EEe--CCeEEEEEEEeCCCcccccccch
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT------VFR--HDKRVKLQIWDTAGQERYRTITT   88 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~------~~~--~~~~~~~~i~D~~g~~~~~~~~~   88 (221)
                      .....+||+|+|.+|||||||+++|++..+...+.++.+.++....      +..  ++..+.+.+||+||++.+..++.
T Consensus        37 ~~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~  116 (535)
T 3dpu_A           37 VHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ  116 (535)
T ss_dssp             BCCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH
Confidence            3457899999999999999999999999988778888877766542      112  23357899999999999999999


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      .+++.+|++|+|+|+++.   +....|+..+.... .+.|+++|+||+|+...+.+..++...++...+.+++++||++|
T Consensus       117 ~~l~~~d~ii~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g  192 (535)
T 3dpu_A          117 FFMTRSSVYMLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNG  192 (535)
T ss_dssp             HHHHSSEEEEEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC---
T ss_pred             HHccCCcEEEEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcc
Confidence            999999999999998765   44566888877764 46999999999999887777888888888888899999999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2300         169 VNVKGVFERLVDIICDK  185 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~~  185 (221)
                      .|+++++++|.+.+.+.
T Consensus       193 ~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          193 DGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             --CTTHHHHHHHHHTCT
T ss_pred             cCHHHHHHHHHHHHhcc
Confidence            99999999999887654

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.93  E-value=6.6e-26  Score=163.39  Aligned_cols=150  Identities=21%  Similarity=0.215  Sum_probs=104.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc-------ccccchhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER-------YRTITTAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~-------~~~~~~~~~~~   93 (221)
                      +||+++|++|+|||||+++|.+..+. ....+..+.......+..++  ..+.+||+||...       +...+..++..
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR--GRFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT--EEEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC--ceEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            68999999999999999999988743 22223333334444555554  3688999999876       23445567899


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVK  172 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~  172 (221)
                      +|++++|+|++++.+... ..+...+..   .+.|+++|+||+|+.+..    ++...++ ..++ +++++||++|.|++
T Consensus        80 ~~~~i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~  150 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLE  150 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHH
T ss_pred             CCEEEEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChH
Confidence            999999999998644322 122233333   379999999999996542    2233344 5677 89999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      ++|++|.+.+
T Consensus       151 ~l~~~l~~~l  160 (161)
T 2dyk_A          151 ELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhC
Confidence            9999998753

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.93  E-value=5.1e-27  Score=185.72  Aligned_cols=156  Identities=20%  Similarity=0.239  Sum_probs=117.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC---ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc---cchhhccCCcE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTS---AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT---ITTAYYRGAMG   96 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~---~~~~~~~~~d~   96 (221)
                      ||+++|..|+|||||++++.++.++.   .+.+|.+..+..  +  + ..+.+++|||+|+++|..   .+..+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~--v--~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH--F--S-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE--E--C-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE--E--c-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999888665433   245666665543  2  2 347899999999999964   35789999999


Q ss_pred             EEEEEECCCh--hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC-------cccCHHHHHHHHHH----hCCeEEEE
Q psy2300          97 FILMYDVTNE--ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE-------RVISFERGKHLAES----LGVEFFET  163 (221)
Q Consensus        97 vi~v~d~~~~--~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~-------~~~~~~~~~~~~~~----~~~~~~~~  163 (221)
                      +|+|||++++  +.+..+..|+..+... .++.|+++++||+|+...       +.+..++.+++++.    +++.+++|
T Consensus        76 ~IlV~Ditd~~~~~~~~l~~~l~~~~~~-~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eT  154 (331)
T 3r7w_B           76 LVYVIDSQDEYINAITNLAMIIEYAYKV-NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLT  154 (331)
T ss_dssp             EEEECCCSSCTTHHHHHHHHHHHHHHHH-CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECC
T ss_pred             EEEEEECCchHHHHHHHHHHHHHHHhhc-CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEe
Confidence            9999999997  3333344445544443 368999999999999764       34555666667664    57899999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHh
Q psy2300         164 SAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ||++ .+|.+.|..|++.+.++
T Consensus       155 SAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          155 SIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             CSSS-SHHHHHHHHHHTTSSTT
T ss_pred             ccCC-CcHHHHHHHHHHHHHhh
Confidence            9998 58999999998876543

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.93  E-value=8.8e-26  Score=167.70  Aligned_cols=164  Identities=15%  Similarity=0.205  Sum_probs=117.8

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC----------ccc
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG----------QER   82 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~   82 (221)
                      +.+.+....++|+|+|.+|+|||||+++|++..+ ..+.++.+.+........+.   .+.+|||||          ++.
T Consensus        15 ~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~   90 (195)
T 3pqc_A           15 PGDYPPPLKGEVAFVGRSNVGKSSLLNALFNRKI-AFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERML   90 (195)
T ss_dssp             TTCCCCCTTCEEEEEEBTTSSHHHHHHHHHTSCC-SCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHH
T ss_pred             hhhCCCCCCeEEEEECCCCCCHHHHHHHHHcCcc-ccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHH
Confidence            3445556789999999999999999999999873 44556666666555544433   477999999          556


Q ss_pred             ccccchhhccCC---cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--cCHHHHHHHHHHhC
Q psy2300          83 YRTITTAYYRGA---MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--ISFERGKHLAESLG  157 (221)
Q Consensus        83 ~~~~~~~~~~~~---d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~  157 (221)
                      +..++..++..+   |++++|+|+++..+.... .+...+...   +.|+++|+||+|+.+...  ...++...++...+
T Consensus        91 ~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~-~~~~~~~~~---~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~  166 (195)
T 3pqc_A           91 WKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDL-MMVEWMKSL---NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYG  166 (195)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHH-HHHHHHHHT---TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSC
T ss_pred             HHHHHHHHHhcCcCceEEEEEecCCCCCCHHHH-HHHHHHHHc---CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcC
Confidence            666666666655   999999999875433322 222233332   799999999999965432  22344555555534


Q ss_pred             -CeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         158 -VEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       158 -~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                       ++++++||++|.|++++|++|.+.+.+
T Consensus       167 ~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          167 EYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             CSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence             689999999999999999999987743

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.93  E-value=2.9e-26  Score=167.70  Aligned_cols=153  Identities=20%  Similarity=0.194  Sum_probs=110.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc--------chhh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI--------TTAY   90 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~--------~~~~   90 (221)
                      ..++|+|+|.+|+|||||+++|++..+. ....+..+.++....+..++.  .+.+|||||...+...        ...+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            3479999999999999999999987642 222333344445555666653  5889999997643211        1235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      ++.+|++++|+|++++.++.. ..|+..+......+.|+++|+||+|+.+...       .++...+.+++++||++|.|
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~g  152 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDP-AEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEG  152 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSH-HHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTT
T ss_pred             HHhCCEEEEEEECCCCCCHHH-HHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCC
Confidence            789999999999999887764 3566666665545799999999999844211       01122456899999999999


Q ss_pred             HHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDII  182 (221)
Q Consensus       171 i~~l~~~i~~~~  182 (221)
                      ++++|++|.+.+
T Consensus       153 v~~l~~~l~~~~  164 (172)
T 2gj8_A          153 VDVLRNHLKQSM  164 (172)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.93  E-value=3.4e-26  Score=178.70  Aligned_cols=153  Identities=23%  Similarity=0.212  Sum_probs=115.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc------ccchhhcc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR------TITTAYYR-   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~------~~~~~~~~-   92 (221)
                      +.++|+++|.+|||||||+++|++........  +++++......+.. ...+.+|||||...+.      .++..++. 
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~--pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~   78 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQRVGNW--PGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLS   78 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCCCCSS--SCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccCC--CCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhc
Confidence            35899999999999999999999876433333  35555555555555 5679999999988765      34455654 


Q ss_pred             -CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          93 -GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        93 -~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                       .+|++++|+|+++.++.   ..|...+..   .+.|+++++||+|+...+.+. .+...++..++++++++||++|.|+
T Consensus        79 ~~~d~vi~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi  151 (272)
T 3b1v_A           79 QRADSILNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGV  151 (272)
T ss_dssp             TCCSEEEEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSH
T ss_pred             CCCCEEEEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCH
Confidence             69999999999886543   345555544   389999999999985433333 3456777888999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         172 KGVFERLVDII  182 (221)
Q Consensus       172 ~~l~~~i~~~~  182 (221)
                      +++|++|.+.+
T Consensus       152 ~el~~~i~~~~  162 (272)
T 3b1v_A          152 DQVVKKAAHTT  162 (272)
T ss_dssp             HHHHHHHHHSC
T ss_pred             HHHHHHHHHHH
Confidence            99999987754

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.93  E-value=7.9e-26  Score=171.76  Aligned_cols=170  Identities=12%  Similarity=0.090  Sum_probs=116.8

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeC-CeEEEEEEEeCCCc----------c
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRH-DKRVKLQIWDTAGQ----------E   81 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~g~----------~   81 (221)
                      +.+.+....++|+|+|.+|+|||||+++|++.........+.+.+......... .....+.+|||||.          +
T Consensus        21 ~~~~~~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~  100 (223)
T 4dhe_A           21 LRDLPPTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKA  100 (223)
T ss_dssp             GGGSCCCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHH
T ss_pred             hhhCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHH
Confidence            445566678999999999999999999999987433344445555554444443 34467899999994          3


Q ss_pred             cccccchhhccC---CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHHH-
Q psy2300          82 RYRTITTAYYRG---AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAES-  155 (221)
Q Consensus        82 ~~~~~~~~~~~~---~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~-  155 (221)
                      .+..+...++..   +|++++|+|++++.+.. ...|+..+..   .+.|+++|+||+|+.......  .+........ 
T Consensus       101 ~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~-~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~  176 (223)
T 4dhe_A          101 HWEQLLSSYLQTRPQLCGMILMMDARRPLTEL-DRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAY  176 (223)
T ss_dssp             HHHHHHHHHHHHCTTEEEEEEEEETTSCCCHH-HHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHH-HHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhh
Confidence            344445555554   88899999998754322 2345555554   379999999999996543321  1222223333 


Q ss_pred             ------hCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         156 ------LGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       156 ------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                            .+.+++++||++|.|++++|++|.+.+....
T Consensus       177 ~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          177 RDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             HHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             hhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence                  3468999999999999999999998875543

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.92  E-value=9.3e-26  Score=174.90  Aligned_cols=151  Identities=19%  Similarity=0.218  Sum_probs=113.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc----------cchhhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT----------ITTAYY   91 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----------~~~~~~   91 (221)
                      .+|+|+|.+|||||||+|+|++..+.....+..+.+.....+..++  ..+.+|||||...+..          +...++
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~--~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~   79 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE--HLIEITDLPGVYSLVANAEGISQDEQIAAQSV   79 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT--EEEEEEECCCCSSCC------CHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC--eEEEEEeCCCcccccccccCCCHHHHHHHHHH
Confidence            4899999999999999999999875444455555555555565554  3789999999876653          445566


Q ss_pred             --cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC
Q psy2300          92 --RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV  169 (221)
Q Consensus        92 --~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  169 (221)
                        ..+|++++|+|+++.++...+.   ..+..   .+.|+++|+||+|+...+.... ....+....+++++++||++|.
T Consensus        80 ~~~~~d~vi~VvDas~~~~~~~l~---~~l~~---~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~  152 (256)
T 3iby_A           80 IDLEYDCIINVIDACHLERHLYLT---SQLFE---LGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNI  152 (256)
T ss_dssp             HHSCCSEEEEEEEGGGHHHHHHHH---HHHTT---SCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTB
T ss_pred             hhCCCCEEEEEeeCCCchhHHHHH---HHHHH---cCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCC
Confidence              8899999999999865544433   33333   3799999999999854332221 2345667789999999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDI  181 (221)
Q Consensus       170 gi~~l~~~i~~~  181 (221)
                      |++++|++|.+.
T Consensus       153 gi~el~~~i~~~  164 (256)
T 3iby_A          153 GIPALQQSLLHC  164 (256)
T ss_dssp             SHHHHHHHHHTC
T ss_pred             CHHHHHHHHHhh
Confidence            999999998775

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.92  E-value=9e-25  Score=170.97  Aligned_cols=157  Identities=18%  Similarity=0.162  Sum_probs=117.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc------cchhhc--c
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT------ITTAYY--R   92 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~------~~~~~~--~   92 (221)
                      .++|+|+|++|||||||+++|++..+.....+..+.+.....+...+  ..+.+|||||...+..      ....++  .
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~   80 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILDG   80 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhcc
Confidence            58999999999999999999999876444455555555555555544  4589999999887665      455555  6


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      .+|++++|+|+++..   ....|...+...  ...|+++++||+|+.+.+.... ....+.+.++++++++||++|.|++
T Consensus        81 ~~d~vi~v~D~~~~~---~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~  154 (271)
T 3k53_A           81 NADVIVDIVDSTCLM---RNLFLTLELFEM--EVKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVE  154 (271)
T ss_dssp             CCSEEEEEEEGGGHH---HHHHHHHHHHHT--TCCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHH
T ss_pred             CCcEEEEEecCCcch---hhHHHHHHHHhc--CCCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHH
Confidence            899999999998753   222333444443  1399999999999754333332 2566777889999999999999999


Q ss_pred             HHHHHHHHHHHHh
Q psy2300         173 GVFERLVDIICDK  185 (221)
Q Consensus       173 ~l~~~i~~~~~~~  185 (221)
                      ++|+++.+.+.+.
T Consensus       155 ~l~~~i~~~~~~~  167 (271)
T 3k53_A          155 ELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999877543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.92  E-value=3.6e-25  Score=173.37  Aligned_cols=154  Identities=18%  Similarity=0.164  Sum_probs=111.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc----------cchhh
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT----------ITTAY   90 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----------~~~~~   90 (221)
                      .++|+|+|.+|||||||+|+|++..+.....+..+.+.....+...+  ..+.+|||||...+..          .+..+
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            48999999999999999999999875444444444444444444433  4688999999876652          12223


Q ss_pred             c--cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCC
Q psy2300          91 Y--RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDN  168 (221)
Q Consensus        91 ~--~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  168 (221)
                      +  ..+|++++|+|+++.+....   |...+...   +.|+++|+||+|+.+.+... .....+....+++++++||++|
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~---~~~~l~~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g  153 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLY---LTLQLLEL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRG  153 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHH---HHHHHHHH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGG
T ss_pred             HhhcCCCEEEEEecCCChHHHHH---HHHHHHhc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCC
Confidence            2  78999999999998655433   33344443   79999999999985433322 1245667778999999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDIIC  183 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~  183 (221)
                      .|+++++++|.+.+.
T Consensus       154 ~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          154 RGIEALKLAIDRYKA  168 (274)
T ss_dssp             HHHHHHHHHHHTCCC
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999998876543

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.91  E-value=2.8e-25  Score=168.25  Aligned_cols=146  Identities=21%  Similarity=0.284  Sum_probs=106.0

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA---FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR   92 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   92 (221)
                      ......++|+|+|++|+|||||+++|++..+...   +.++.+..+         ..+.+.+||+||++.+...+..++.
T Consensus         7 ~~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~~---------~~~~~~l~Dt~G~~~~~~~~~~~~~   77 (218)
T 1nrj_B            7 KQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADY---------DGSGVTLVDFPGHVKLRYKLSDYLK   77 (218)
T ss_dssp             ---CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETTG---------GGSSCEEEECCCCGGGTHHHHHHHH
T ss_pred             CccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEEe---------eCceEEEEECCCcHHHHHHHHHHHH
Confidence            3345679999999999999999999999886442   333333222         3457899999999999888888887


Q ss_pred             C----CcEEEEEEECC-ChhhHHHHHHHHHHHHhh----CCCCCcEEEEEeCCCCCCCcccC------HHHHHHHHHHhC
Q psy2300          93 G----AMGFILMYDVT-NEESFTSIQDWITQIKTY----SWDNAQVILVGNKCDMEDERVIS------FERGKHLAESLG  157 (221)
Q Consensus        93 ~----~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~----~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~~~  157 (221)
                      .    +|++|+|+|++ ++.++..+..|+..+...    ...+.|+++|+||+|+.....+.      .++...++...+
T Consensus        78 ~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~  157 (218)
T 1nrj_B           78 TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRK  157 (218)
T ss_dssp             HHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHh
Confidence            7    89999999999 888998888888777543    33589999999999997765443      344566666667


Q ss_pred             CeEEEEecCCCCC
Q psy2300         158 VEFFETSAKDNVN  170 (221)
Q Consensus       158 ~~~~~~Sa~~~~g  170 (221)
                      +.++++|+++|.+
T Consensus       158 ~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          158 KSLNEVERKINEE  170 (218)
T ss_dssp             HHHHC--------
T ss_pred             ccccccccccccc
Confidence            7899999998765

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.91  E-value=4.9e-24  Score=177.19  Aligned_cols=161  Identities=15%  Similarity=0.136  Sum_probs=114.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCc----------ccccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ----------ERYRTIT   87 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~----------~~~~~~~   87 (221)
                      +..++|+++|.+|+|||||+|+|++..+. ....+..+.+.....+..++.  .+.+|||||+          +.|..++
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            45799999999999999999999988753 222333333333344555543  5899999997          3343333


Q ss_pred             h-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-HH----hCCeEE
Q psy2300          88 T-AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-ES----LGVEFF  161 (221)
Q Consensus        88 ~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-~~----~~~~~~  161 (221)
                      . .+++.+|++++|+|++++.++++. .|+..+..   .+.|+++|+||+|+.+.+....++..... ..    .+++++
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~  326 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  326 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEE
Confidence            2 467889999999999998887776 46666654   38999999999999765554433332222 22    357999


Q ss_pred             EEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         162 ETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++||++|.|++++|+.+.+.+.+.
T Consensus       327 ~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          327 FMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             EEecccCCCHHHHHHHHHHHHHHh
Confidence            999999999999999999887654

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.91  E-value=4e-24  Score=178.59  Aligned_cols=157  Identities=15%  Similarity=0.164  Sum_probs=99.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc--------hhh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT--------TAY   90 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   90 (221)
                      ..++|+|+|.+|+|||||+|+|++... .....+..+.+.....+..++  +.+.+|||||...+...+        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            458999999999999999999998753 122233333333334454544  579999999987654332        336


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      +..+|++++|+|++++.++..+..+...+....  +.|+++|+||+|+........   ..+......+++++||++|.|
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~~~---~~l~~~~~~~~i~vSAktg~G  384 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADALI---RAIADGTGTEVIGISALNGDG  384 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHHHH---HHHHHHHTSCEEECBTTTTBS
T ss_pred             cccCCEEEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccchhH---HHHHhcCCCceEEEEECCCCC
Confidence            789999999999999887754444444444432  799999999999976554321   233333236899999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIIC  183 (221)
Q Consensus       171 i~~l~~~i~~~~~  183 (221)
                      +++++++|.+.+.
T Consensus       385 I~eL~~~i~~~~~  397 (476)
T 3gee_A          385 IDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988775

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.90  E-value=8.5e-23  Score=165.65  Aligned_cols=162  Identities=17%  Similarity=0.149  Sum_probs=119.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc---------ccchh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR---------TITTA   89 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~---------~~~~~   89 (221)
                      ...++|+++|.+|+|||||+++|++..+.....+..+.......+...  ...+.+|||||.....         .....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            467899999999999999999999887432222222222333333333  3578999999975321         11123


Q ss_pred             hccCCcEEEEEEECCChh--hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          90 YYRGAMGFILMYDVTNEE--SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      +...+|++++|+|++++.  ++.....|+..+.... .+.|+++|+||+|+.....  .++...++...+++++++||++
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~-~~~piilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iSA~~  319 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF-KDLPFLVVINKIDVADEEN--IKRLEKFVKEKGLNPIKISALK  319 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT-TTSCEEEEECCTTTCCHHH--HHHHHHHHHHTTCCCEECBTTT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc-CCCCEEEEEECcccCChHH--HHHHHHHHHhcCCCeEEEeCCC
Confidence            445799999999998876  6777778888876654 2799999999999966433  2445566667788999999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2300         168 NVNVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~  185 (221)
                      |+|+++++++|.+.+...
T Consensus       320 g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          320 GTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHH
Confidence            999999999999988654

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.90  E-value=7.5e-24  Score=167.76  Aligned_cols=156  Identities=17%  Similarity=0.148  Sum_probs=106.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--------ccccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--------YRTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--------~~~~~~~~~   91 (221)
                      ...+|+|+|.+|+|||||+|+|++..+... .+.++++.............++.||||||...        +......++
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~iv-s~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l   84 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPI-SPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL   84 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCC-CSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeee-cCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHH
Confidence            456899999999999999999999876421 11122222222111222346899999999765        344455678


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-hC-CeEEEEecCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES-LG-VEFFETSAKDNV  169 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~-~~~~~~Sa~~~~  169 (221)
                      +.+|++++|+|++++.+... ..++..+.... .+.|+++|+||+|+.+....    ....... .+ .+++++||++|.
T Consensus        85 ~~ad~il~VvD~~~~~~~~~-~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~iSA~~g~  158 (301)
T 1wf3_A           85 ADVNAVVWVVDLRHPPTPED-ELVARALKPLV-GKVPILLVGNKLDAAKYPEE----AMKAYHELLPEAEPRMLSALDER  158 (301)
T ss_dssp             SSCSEEEEEEETTSCCCHHH-HHHHHHHGGGT-TTSCEEEEEECGGGCSSHHH----HHHHHHHTSTTSEEEECCTTCHH
T ss_pred             hcCCEEEEEEECCCCCChHH-HHHHHHHHhhc-CCCCEEEEEECcccCCchHH----HHHHHHHhcCcCcEEEEeCCCCC
Confidence            99999999999988654432 22334454432 47999999999999654330    1222222 23 479999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDII  182 (221)
Q Consensus       170 gi~~l~~~i~~~~  182 (221)
                      |+++++++|.+.+
T Consensus       159 gv~~l~~~l~~~l  171 (301)
T 1wf3_A          159 QVAELKADLLALM  171 (301)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHhc
Confidence            9999999987654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.90  E-value=1.1e-24  Score=179.18  Aligned_cols=165  Identities=16%  Similarity=0.157  Sum_probs=117.1

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc----
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI----   86 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~----   86 (221)
                      .|.+.+....++|+|+|+.|+|||||+++|++..+. ....+..+.+.....+...+. ..+.+|||||++.+..+    
T Consensus        25 sm~~~~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~  103 (423)
T 3qq5_A           25 TMRLPDAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLR  103 (423)
T ss_dssp             CCCC---CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCC
T ss_pred             ccccCCCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHH
Confidence            344556677899999999999999999999988753 222333333444455555443 27899999998876554    


Q ss_pred             ---chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEE
Q psy2300          87 ---TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFET  163 (221)
Q Consensus        87 ---~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  163 (221)
                         +..++..+|++|+|+|+...   .....|+..+...   +.|+++|+||+|+......  +....+...++++++++
T Consensus       104 ~~~~~~~l~~aD~vllVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~v  175 (423)
T 3qq5_A          104 VEKARRVFYRADCGILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLV  175 (423)
T ss_dssp             HHHHHHHHTSCSEEEEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCC
T ss_pred             HHHHHHHHhcCCEEEEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEE
Confidence               34478899999999998332   3345577777665   7999999999999776543  45566666778899999


Q ss_pred             ecCCCCCHHHHHHHHHHHHHHh
Q psy2300         164 SAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ||++|.|++++|++|.+.+.+.
T Consensus       176 SAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          176 SALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             SSCCTTSTTTHHHHHHHHSCCC
T ss_pred             ECCCCCCHHHHHHHHHHhhhhh
Confidence            9999999999999998887544

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.90  E-value=1.3e-23  Score=175.57  Aligned_cols=162  Identities=15%  Similarity=0.133  Sum_probs=118.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCeEEEEEEEeCCC----------cccccccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG----------QERYRTIT   87 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g----------~~~~~~~~   87 (221)
                      +..++|+++|.+|+|||||+++|++... .....+..+.+.....+..++.  .+.+|||||          ++.+..++
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            4679999999999999999999997652 2222333333333344445543  789999999          56665554


Q ss_pred             h-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-----CCeEE
Q psy2300          88 T-AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-----GVEFF  161 (221)
Q Consensus        88 ~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~  161 (221)
                      . .+++.+|++|+|+|+++..... ...|...+..   .+.|+++|+||+|+.+.+....++..+.+...     +++++
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~~~-~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  346 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGIIEQ-DKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPIL  346 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHH-HHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEE
T ss_pred             HHHHHhhCCEEEEEEeCCCCcCHH-HHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEE
Confidence            4 3678999999999998854432 3345555554   37999999999999876666667766666655     47999


Q ss_pred             EEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         162 ETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ++||++|.|++++|+++.+.+.+..
T Consensus       347 ~~SA~~g~gv~~l~~~i~~~~~~~~  371 (456)
T 4dcu_A          347 FMSALTKKRIHTLMPAIIKASENHS  371 (456)
T ss_dssp             ECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             EEcCCCCcCHHHHHHHHHHHHHHhc
Confidence            9999999999999999999886654

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.90  E-value=8.5e-24  Score=169.79  Aligned_cols=159  Identities=16%  Similarity=0.194  Sum_probs=117.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----cccccchhhcc---CC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----RYRTITTAYYR---GA   94 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----~~~~~~~~~~~---~~   94 (221)
                      .+|+|+|.+|||||||+++|++........+..+.......+.+++ ...+.+|||||..    .+..+...+++   .+
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~  237 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERT  237 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhc
Confidence            4689999999999999999998764222222222222233344443 2468999999953    33344455544   49


Q ss_pred             cEEEEEEECCC---hhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEecCC
Q psy2300          95 MGFILMYDVTN---EESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSAKD  167 (221)
Q Consensus        95 d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~  167 (221)
                      |++|+|+|+++   +++++++..|+..+..+.  ..+.|+++|+||+|+....    +....+...+.  .+++++||++
T Consensus       238 d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~t  313 (342)
T 1lnz_A          238 RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVT  313 (342)
T ss_dssp             CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCC
T ss_pred             cEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCC
Confidence            99999999998   788999999999988764  2589999999999996532    34455556655  6899999999


Q ss_pred             CCCHHHHHHHHHHHHHHh
Q psy2300         168 NVNVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~  185 (221)
                      +.|+++++++|.+.+.+.
T Consensus       314 g~gi~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          314 REGLRELLFEVANQLENT  331 (342)
T ss_dssp             SSTTHHHHHHHHHHHTSC
T ss_pred             CcCHHHHHHHHHHHHhhC
Confidence            999999999999887543

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.89  E-value=2.3e-22  Score=165.57  Aligned_cols=163  Identities=14%  Similarity=0.159  Sum_probs=115.5

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEE---------EE-------EEe---CCeEEEEEEEeC
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV---------KT-------VFR---HDKRVKLQIWDT   77 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~---------~~-------~~~---~~~~~~~~i~D~   77 (221)
                      .....++|+++|++++|||||+++|++....... .....+...         ..       ...   ......+.+|||
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDt   82 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKL-GYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDA   82 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSS-EEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEEC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCccccccc-CccccceeeccccccccceecccccccccccccccccceEEEEEC
Confidence            3456799999999999999999999985432210 000000000         00       000   112368999999


Q ss_pred             CCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHHH
Q psy2300          78 AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAES  155 (221)
Q Consensus        78 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~  155 (221)
                      ||++.|...+...+..+|++++|+|++++.++.....|+..+....  ..|+++++||+|+.+.....  .++...+...
T Consensus        83 PGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~  160 (403)
T 3sjy_A           83 PGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKG  160 (403)
T ss_dssp             CCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTT
T ss_pred             CCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999998876777777777776653  46899999999996543221  1222222222


Q ss_pred             h---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         156 L---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       156 ~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .   +++++++||++|.|+++++++|.+.+
T Consensus       161 ~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          161 TWAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             STTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             hCCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence            2   56899999999999999999988754

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.89  E-value=4.5e-22  Score=164.08  Aligned_cols=158  Identities=16%  Similarity=0.211  Sum_probs=104.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC---CCCcccc--ceeeeeEEEEEEe-------------C--C----eEEEEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS---FTSAFVS--TVGIDFKVKTVFR-------------H--D----KRVKLQI   74 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~i   74 (221)
                      ...++|+++|+.++|||||+++|++..   +..+..+  |....+....+..             +  +    ....+.|
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            456999999999999999999998543   2233333  3333333333321             1  1    1368999


Q ss_pred             EeCCCcccccccchhhccCCcEEEEEEECCCh----hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--cCHHH
Q psy2300          75 WDTAGQERYRTITTAYYRGAMGFILMYDVTNE----ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--ISFER  148 (221)
Q Consensus        75 ~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~  148 (221)
                      |||||++.|...+...+..+|++|+|+|++++    ++++++.    .+...  ...|+++++||+|+.+...  ...++
T Consensus        86 iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~l--~~~~iivv~NK~Dl~~~~~~~~~~~~  159 (408)
T 1s0u_A           86 VDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM----ALEIL--GIDKIIIVQNKIDLVDEKQAEENYEQ  159 (408)
T ss_dssp             EECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH----HHHHT--TCCCEEEEEECTTSSCTTTTTTHHHH
T ss_pred             EECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH----HHHHc--CCCeEEEEEEccCCCCHHHHHHHHHH
Confidence            99999999888777778889999999999964    3444433    23332  2458999999999976433  23455


Q ss_pred             HHHHHHH---hCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         149 GKHLAES---LGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       149 ~~~~~~~---~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ...++..   .+++++++||++|.|+++++++|.+.+
T Consensus       160 i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i  196 (408)
T 1s0u_A          160 IKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFI  196 (408)
T ss_dssp             HHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHS
T ss_pred             HHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            5666554   357899999999999999999987654

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.88  E-value=1.5e-22  Score=163.15  Aligned_cols=119  Identities=19%  Similarity=0.299  Sum_probs=99.4

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTYS-WDNAQVILVGNKCD  137 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~D  137 (221)
                      .+.+.+||++|++.++..|..++++++++|||+|+++          ..++.+...|+..+.... ..+.|++|++||+|
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~D  271 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKD  271 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcC
Confidence            4789999999999999999999999999999999998          467888888888876532 35799999999999


Q ss_pred             CCCCc---------------ccCHHHHHHHHH-----------HhCCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         138 MEDER---------------VISFERGKHLAE-----------SLGVEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       138 l~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      +...+               .++.+++..++.           ..++.+++|||+++.||.++|+++.+.+.+...
T Consensus       272 L~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~~l  347 (353)
T 1cip_A          272 LFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKNNL  347 (353)
T ss_dssp             HHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHHC-
T ss_pred             chhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHHHH
Confidence            84322               256777777776           245789999999999999999999999887654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.88  E-value=2.7e-22  Score=154.08  Aligned_cols=167  Identities=10%  Similarity=0.140  Sum_probs=104.6

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--eEEEEEEeCCeEEEEEEEeCCCc-----------
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRHDKRVKLQIWDTAGQ-----------   80 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~-----------   80 (221)
                      .+.+....++|+|+|.+|+|||||+++|++..+.....+..+.+  ........++  ..+.+|||||.           
T Consensus        22 ~~~~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~   99 (239)
T 3lxx_A           22 RQEPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETS   99 (239)
T ss_dssp             ------CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHH
T ss_pred             cCCCCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHH
Confidence            34455678999999999999999999999988765554533333  3334444443  47899999993           


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhh--HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC------HHHHHHH
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEES--FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS------FERGKHL  152 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s--~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~  152 (221)
                      ..+...+...++.+|++|+|+|+++...  ...+..+...+...  ...|+++|+||+|+.....+.      .+..+.+
T Consensus       100 ~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l  177 (239)
T 3lxx_A          100 KEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDL  177 (239)
T ss_dssp             HHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHH
T ss_pred             HHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHH
Confidence            2334444455678899999999875432  22232233322222  246999999999986543332      1356677


Q ss_pred             HHHhCCeEEEEecCCC-----CCHHHHHHHHHHHHHH
Q psy2300         153 AESLGVEFFETSAKDN-----VNVKGVFERLVDIICD  184 (221)
Q Consensus       153 ~~~~~~~~~~~Sa~~~-----~gi~~l~~~i~~~~~~  184 (221)
                      .+..+..++.++...+     .++.++++.+.+.+.+
T Consensus       178 ~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          178 MDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             HHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            7788888888877654     6888888887776654

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.88  E-value=1.5e-22  Score=169.31  Aligned_cols=153  Identities=18%  Similarity=0.210  Sum_probs=112.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-cccc--------cchhh
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-RYRT--------ITTAY   90 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-~~~~--------~~~~~   90 (221)
                      .++|+|+|.+|+|||||+|+|++..+. ....+..+.+.....+..++  ..+.+|||+|.. .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            389999999999999999999987632 23334344444445555554  568999999987 5432        23456


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      +..+|++|+|+|++++.++++.. ++..+     .+.|+++|+||+|+...  +..++...+. ..+.+++++||++|.|
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~-~~~~~~i~iSAktg~G  391 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKGEG  391 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGTCC
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHh-cCCCcEEEEECCCCCC
Confidence            88999999999999887776543 22332     37899999999999653  3444444443 2346899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIICD  184 (221)
Q Consensus       171 i~~l~~~i~~~~~~  184 (221)
                      +++++++|.+.+..
T Consensus       392 i~eL~~~l~~~~~~  405 (482)
T 1xzp_A          392 LEKLEESIYRETQE  405 (482)
T ss_dssp             HHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999997664

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.88  E-value=1.1e-22  Score=169.25  Aligned_cols=153  Identities=22%  Similarity=0.254  Sum_probs=101.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--eEEEEEEeCCeEEEEEEEeCCCccc---------ccccchhh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRHDKRVKLQIWDTAGQER---------YRTITTAY   90 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~~~---------~~~~~~~~   90 (221)
                      .+|+++|.+|+|||||+|+|++.... ....+++++  .....+..++  ..+.+|||||.+.         +...+..+
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~-~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~   78 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKA-IVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNM   78 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCc-eecCCCCCccceeeEEEEECC--eEEEEEECCCccccccchHHHHHHHHHHHH
Confidence            47999999999999999999988742 123344443  3444555554  3588999999653         23445667


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH-HHHHHHhCC-eEEEEecCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG-KHLAESLGV-EFFETSAKDN  168 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~~~~~-~~~~~Sa~~~  168 (221)
                      ++.+|++++|+|+.++.+..+. .+...+...   +.|+++|+||+|+...  . ..+. .++. ..++ .++++||++|
T Consensus        79 ~~~ad~il~V~D~~~~~~~~d~-~i~~~l~~~---~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g  150 (439)
T 1mky_A           79 IREADLVLFVVDGKRGITKEDE-SLADFLRKS---TVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHN  150 (439)
T ss_dssp             HTTCSEEEEEEETTTCCCHHHH-HHHHHHHHH---TCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTT
T ss_pred             HHhCCEEEEEEECCCCCCHHHH-HHHHHHHHc---CCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCC
Confidence            8999999999999876544321 122222222   7999999999998432  1 1222 3333 4566 7899999999


Q ss_pred             CCHHHHHHHHHHHHHHh
Q psy2300         169 VNVKGVFERLVDIICDK  185 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~~  185 (221)
                      .|+++++++|.+.+.+.
T Consensus       151 ~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          151 INLDTMLETIIKKLEEK  167 (439)
T ss_dssp             BSHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHhcccc
Confidence            99999999999887643

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.88  E-value=2.4e-22  Score=171.62  Aligned_cols=157  Identities=22%  Similarity=0.292  Sum_probs=110.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC--CC-----Cc------cccceeeeeEEEEEEe-----CCeEEEEEEEeCCCcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS--FT-----SA------FVSTVGIDFKVKTVFR-----HDKRVKLQIWDTAGQE   81 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~--~~-----~~------~~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~g~~   81 (221)
                      +..+|+++|+.++|||||+++|+...  +.     ..      ...+.+++.......+     ++..+.+.+|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            46799999999999999999998632  10     00      1112344443333322     4556899999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC---
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV---  158 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---  158 (221)
                      .|...+..++..+|++|+|+|++++.+.+....|.....    .+.|+++++||+|+.+..  ..+....+...+++   
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~  156 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDAT  156 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCT
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcc
Confidence            999888889999999999999999877777777766654    278999999999997653  22334455555665   


Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         159 EFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       159 ~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .++++||++|.|+++++++|.+.+
T Consensus       157 ~vi~vSAktg~GI~~Ll~~I~~~l  180 (599)
T 3cb4_D          157 DAVRCSAKTGVGVQDVLERLVRDI  180 (599)
T ss_dssp             TCEEECTTTCTTHHHHHHHHHHHS
T ss_pred             eEEEeecccCCCchhHHHHHhhcC
Confidence            489999999999999999888765

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.88  E-value=8.8e-22  Score=162.45  Aligned_cols=159  Identities=17%  Similarity=0.202  Sum_probs=111.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC---CCCcccc--ceeeeeEEEEEEe-------------C--C----eEEEEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS---FTSAFVS--TVGIDFKVKTVFR-------------H--D----KRVKLQ   73 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~   73 (221)
                      ....++|+++|+.++|||||+++|++..   +..+..+  |....+....+..             +  +    ....+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            4578999999999999999999998543   2233333  3333333333321             0  1    136899


Q ss_pred             EEeCCCcccccccchhhccCCcEEEEEEECCCh----hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc--cCHH
Q psy2300          74 IWDTAGQERYRTITTAYYRGAMGFILMYDVTNE----ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV--ISFE  147 (221)
Q Consensus        74 i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~----~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~  147 (221)
                      ||||||++.|...+...+..+|++|+|+|+++.    ++.+.+.    .+...  ...|+++++||+|+.+...  ...+
T Consensus        87 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~----~~~~~--~~~~iivviNK~Dl~~~~~~~~~~~  160 (410)
T 1kk1_A           87 FIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM----ALQII--GQKNIIIAQNKIELVDKEKALENYR  160 (410)
T ss_dssp             EEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH----HHHHH--TCCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH----HHHHc--CCCcEEEEEECccCCCHHHHHHHHH
Confidence            999999999887777778899999999999964    3444433    23333  2468999999999966432  1233


Q ss_pred             HHHHHHHH---hCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         148 RGKHLAES---LGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       148 ~~~~~~~~---~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +...++..   .+++++++||++|.|+++++++|.+.+
T Consensus       161 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~  198 (410)
T 1kk1_A          161 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  198 (410)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            44445443   357899999999999999999887654

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.88  E-value=5.4e-22  Score=166.45  Aligned_cols=155  Identities=15%  Similarity=0.145  Sum_probs=109.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC-------CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS-------FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR   92 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~   92 (221)
                      ..++|+++|+.++|||||+++|++..       +..+..+.++.+.....+..++  ..+.+|||||++.|...+...+.
T Consensus        18 ~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~--~~i~iiDtPGh~~~~~~~~~~~~   95 (482)
T 1wb1_A           18 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLEN--YRITLVDAPGHADLIRAVVSAAD   95 (482)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETT--EEEEECCCSSHHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECC--EEEEEEECCChHHHHHHHHHHHh
Confidence            57999999999999999999999876       2222222222222222333333  67999999999999888888999


Q ss_pred             CCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHHHHHHHh----CCeEEEE
Q psy2300          93 GAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGKHLAESL----GVEFFET  163 (221)
Q Consensus        93 ~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~~~~  163 (221)
                      .+|++++|+|+++   +++.+.+.    .+...   +.|+++++||+|+.+....  ..++...++...    +.+++++
T Consensus        96 ~aD~~ilVvda~~g~~~qt~e~l~----~~~~~---~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~v  168 (482)
T 1wb1_A           96 IIDLALIVVDAKEGPKTQTGEHML----ILDHF---NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPI  168 (482)
T ss_dssp             SCCEEEEEEETTTCSCHHHHHHHH----HHHHT---TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEEC
T ss_pred             hCCEEEEEEecCCCccHHHHHHHH----HHHHc---CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEE
Confidence            9999999999987   44444332    33332   7889999999999653211  123444555554    5789999


Q ss_pred             ecCCCCCHHHHHHHHHHHHH
Q psy2300         164 SAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       164 Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ||++|.|+++++++|.+.+.
T Consensus       169 SA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          169 SAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             CTTTCTTHHHHHHHHHHHHH
T ss_pred             ECcCCCCHHHHHHHHHHhhc
Confidence            99999999999999998775

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.88  E-value=2.2e-22  Score=159.55  Aligned_cols=157  Identities=17%  Similarity=0.157  Sum_probs=105.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc---------cccccchhh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE---------RYRTITTAY   90 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~~~   90 (221)
                      ...+|+|+|++|+|||||+++|++..+... .+..+++.......+.....++.+|||||..         .+......+
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~-s~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~   85 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISIT-SRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSS   85 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEEC-CCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCcccc-CCCCCcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHH
Confidence            446899999999999999999999875321 1112222221111122233679999999986         234445667


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNV  169 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~  169 (221)
                      +..+|++++|+|+++ -  .....|+......  .+.|+++++||+|+........+....+....++ .++++||++|.
T Consensus        86 l~~~D~vl~Vvd~~~-~--~~~~~~i~~~l~~--~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~  160 (301)
T 1ega_A           86 IGDVELVIFVVEGTR-W--TPDDEMVLNKLRE--GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGL  160 (301)
T ss_dssp             CCCEEEEEEEEETTC-C--CHHHHHHHHHHHS--SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTT
T ss_pred             HhcCCEEEEEEeCCC-C--CHHHHHHHHHHHh--cCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCC
Confidence            889999999999976 2  2222333222221  3799999999999966222222344455555565 79999999999


Q ss_pred             CHHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDII  182 (221)
Q Consensus       170 gi~~l~~~i~~~~  182 (221)
                      |+++++++|.+.+
T Consensus       161 ~v~~l~~~i~~~l  173 (301)
T 1ega_A          161 NVDTIAAIVRKHL  173 (301)
T ss_dssp             THHHHHHHHHTTC
T ss_pred             CHHHHHHHHHHhC
Confidence            9999999887654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.88  E-value=2.2e-23  Score=173.32  Aligned_cols=152  Identities=18%  Similarity=0.195  Sum_probs=101.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc--------cccccchhhccC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE--------RYRTITTAYYRG   93 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~--------~~~~~~~~~~~~   93 (221)
                      ++|+++|.+|+|||||+|+|++..+. ...++++++...........+..+.+|||||.+        .+...+..++..
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~-~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~   82 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDE   82 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCce-eecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHh
Confidence            68999999999999999999987653 345667777666666665556679999999975        456667778899


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCCHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVNVK  172 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~  172 (221)
                      +|++|+|+|+.++.+..+. .+...+..   .+.|+++|+||+|+.....    +..++. ..++ .++++||++|.|++
T Consensus        83 ad~il~vvD~~~~~~~~d~-~~~~~l~~---~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~  153 (436)
T 2hjg_A           83 ADVIIFMVNGREGVTAADE-EVAKILYR---TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLG  153 (436)
T ss_dssp             CSEEEEEEETTTCSCHHHH-HHHHHHTT---CCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHH
T ss_pred             CCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChH
Confidence            9999999999987665432 23333332   4899999999999864321    111122 3455 78999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         173 GVFERLVDIIC  183 (221)
Q Consensus       173 ~l~~~i~~~~~  183 (221)
                      ++++++.+.+.
T Consensus       154 ~L~~~i~~~l~  164 (436)
T 2hjg_A          154 DLLDAVAEHFK  164 (436)
T ss_dssp             HHHHHHHHTGG
T ss_pred             HHHHHHHHhcC
Confidence            99999987764

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.88  E-value=2.3e-21  Score=157.05  Aligned_cols=161  Identities=16%  Similarity=0.151  Sum_probs=109.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc---------cccccchhhccC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE---------RYRTITTAYYRG   93 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~~~~~~   93 (221)
                      .|+|+|.+|+|||||+++|++..+.....+..+.+.....+.+++  ..+.+|||+|.-         .+...+ ..+..
T Consensus       181 ~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl-~~~~~  257 (364)
T 2qtf_A          181 SIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTL-SEAKY  257 (364)
T ss_dssp             EEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHH-HGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHH-HHHHh
Confidence            499999999999999999998875433333333344555666666  467899999962         222222 24788


Q ss_pred             CcEEEEEEECCChh--hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-HHHHHHHHHHh---CCeEEEEecCC
Q psy2300          94 AMGFILMYDVTNEE--SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-FERGKHLAESL---GVEFFETSAKD  167 (221)
Q Consensus        94 ~d~vi~v~d~~~~~--s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~---~~~~~~~Sa~~  167 (221)
                      +|++++|+|++++.  ....+..|...+......+.|+++|+||+|+....... .+....+....   +.+++++||++
T Consensus       258 aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~  337 (364)
T 2qtf_A          258 SDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALK  337 (364)
T ss_dssp             SSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTT
T ss_pred             CCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCC
Confidence            99999999999876  56666666666666544678999999999986543110 11222333444   24689999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy2300         168 NVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~  186 (221)
                      |.|+++++++|.+.+....
T Consensus       338 g~gi~~L~~~I~~~l~~~~  356 (364)
T 2qtf_A          338 RTNLELLRDKIYQLATQLS  356 (364)
T ss_dssp             TBSHHHHHHHHHHHHHHHC
T ss_pred             CcCHHHHHHHHHHHhcccC
Confidence            9999999999998776543

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.87  E-value=1.1e-21  Score=167.47  Aligned_cols=159  Identities=21%  Similarity=0.337  Sum_probs=113.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC-----ccc------cceeeeeEE--EEEEe---CCeEEEEEEEeCCCc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTS-----AFV------STVGIDFKV--KTVFR---HDKRVKLQIWDTAGQ   80 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~-----~~~------~~~~~~~~~--~~~~~---~~~~~~~~i~D~~g~   80 (221)
                      +...+|+++|+.++|||||+++|+...  +..     .+.      ...+++...  ..+..   ++..+.+.+|||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            457899999999999999999997631  110     011      112233221  11211   455689999999999


Q ss_pred             ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC--
Q psy2300          81 ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV--  158 (221)
Q Consensus        81 ~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  158 (221)
                      ..|...+..++..+|++|+|+|++++.+.+....|.....    .+.|+++++||+|+.+...  .....++....++  
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~~--~~v~~el~~~lg~~~  157 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSADV--DRVKKQIEEVLGLDP  157 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCCH--HHHHHHHHHTSCCCG
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccCH--HHHHHHHHHhhCCCc
Confidence            9998888888999999999999999887777777766654    3799999999999976531  2234445555565  


Q ss_pred             -eEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         159 -EFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       159 -~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                       .++++||++|.|+++++++|.+.+.
T Consensus       158 ~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          158 EEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             GGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             ccEEEEEeecCCCchHHHHHHHHhcc
Confidence             4899999999999999998877653

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.87  E-value=3.2e-22  Score=168.18  Aligned_cols=154  Identities=16%  Similarity=0.160  Sum_probs=102.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC---------------------------ccccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTS---------------------------AFVSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|++++|||||+++|+...  +..                           ......+++.......++...
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~  110 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  110 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCC
Confidence            457999999999999999999997651  100                           001112444444444444455


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHH------HHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFT------SIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~------~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.||||||++.|...+..++..+|++|+|+|++++..+.      .....+..+...  ...|++|++||+|+.+...
T Consensus       111 ~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iIvviNK~Dl~~~~~  188 (483)
T 3p26_A          111 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQ  188 (483)
T ss_dssp             CEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGGTTCH
T ss_pred             ceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEEEEEECcCcccchH
Confidence            78999999999999999999999999999999999865432      222222333332  2356999999999976433


Q ss_pred             cCHHHHH----HHHHHh-----CCeEEEEecCCCCCHHHH
Q psy2300         144 ISFERGK----HLAESL-----GVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       144 ~~~~~~~----~~~~~~-----~~~~~~~Sa~~~~gi~~l  174 (221)
                      ...++..    .+....     +++++++||++|.|++++
T Consensus       189 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          189 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            3333333    333333     357999999999999853

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.87  E-value=3e-21  Score=160.28  Aligned_cols=158  Identities=16%  Similarity=0.142  Sum_probs=106.8

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCC--CC---------------------------ccccceeeeeEEEEEEeC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSF--TS---------------------------AFVSTVGIDFKVKTVFRH   66 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~--~~---------------------------~~~~~~~~~~~~~~~~~~   66 (221)
                      .+....++|+++|++++|||||+++|+...-  ..                           ......+++.......+.
T Consensus        12 ~~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~   91 (439)
T 3j2k_7           12 APKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFE   91 (439)
T ss_pred             CCCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEe
Confidence            3445689999999999999999999954320  00                           001112444444444444


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhh---HH---HHHHHHHHHHhhCCCCCc-EEEEEeCCCCC
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEES---FT---SIQDWITQIKTYSWDNAQ-VILVGNKCDME  139 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~~---~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~  139 (221)
                      .....+.||||||++.|...+...+..+|++|+|+|+++...   |+   .....+..+..   .+.| +++++||+|+.
T Consensus        92 ~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~---~~v~~iIvviNK~Dl~  168 (439)
T 3j2k_7           92 TEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT---AGVKHLIVLINKMDDP  168 (439)
T ss_pred             cCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH---cCCCeEEEEeecCCCc
Confidence            455689999999999999988889999999999999987532   11   22222222333   2666 99999999985


Q ss_pred             CCc--c----cCHHHHHHHHHHhC------CeEEEEecCCCCCHHHHHH
Q psy2300         140 DER--V----ISFERGKHLAESLG------VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       140 ~~~--~----~~~~~~~~~~~~~~------~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ...  .    ...++...++...+      ++++++||++|.|++++++
T Consensus       169 ~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          169 TVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             ccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            421  1    11223344444444      4799999999999999766

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.87  E-value=4.9e-22  Score=154.43  Aligned_cols=165  Identities=14%  Similarity=0.148  Sum_probs=105.1

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCC-CCCccccc-eeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc-------
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDS-FTSAFVST-VGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT-------   87 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~-~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~-------   87 (221)
                      +....++|+|+|++|+|||||+++|++.. +.....++ .+..........++  ..+.||||||...+....       
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i   95 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEV   95 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHH
Confidence            34467999999999999999999999877 33333333 33333333444443  579999999976543221       


Q ss_pred             ----hhhccCCcEEEEEEECCChhh-HHHHHHHHHHHHhhCCCCCcEEEEEe-CCCCCCCcccCH-------HHHHHHHH
Q psy2300          88 ----TAYYRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGN-KCDMEDERVISF-------ERGKHLAE  154 (221)
Q Consensus        88 ----~~~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~p~ivv~n-K~Dl~~~~~~~~-------~~~~~~~~  154 (221)
                          ..+++.+|++|+|+|+++... ...+..++..+.... ...|.++++| |+|+.... +..       .+...+..
T Consensus        96 ~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~~~~-~~~~i~~~~~~~~~~~~~  173 (260)
T 2xtp_A           96 QRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLNGGS-LMDYMHDSDNKALSKLVA  173 (260)
T ss_dssp             HHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGTTCC-HHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccCCcc-HHHHHHhcchHHHHHHHH
Confidence                226788999999999986222 122223333332111 1356666666 99997432 111       22334555


Q ss_pred             HhCCe---E--EEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         155 SLGVE---F--FETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       155 ~~~~~---~--~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ..+..   +  +++||++|.|++++|++|.+.+...
T Consensus       174 ~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          174 ACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             HTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            55532   2  7899999999999999999988764

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.86  E-value=1.1e-21  Score=155.98  Aligned_cols=120  Identities=22%  Similarity=0.268  Sum_probs=97.9

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT----------NEESFTSIQDWITQIKTYS-WDNAQVILVGNKCD  137 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~D  137 (221)
                      .+.+++||++|++.++..|..++++++++|+|+|++          +..++.+...|+..+.... ..+.|++|++||+|
T Consensus       166 ~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~D  245 (327)
T 3ohm_A          166 SVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD  245 (327)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHH
T ss_pred             ceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECch
Confidence            478999999999999999999999999999999665          5677887777777775432 35899999999999


Q ss_pred             CCCCc----------------ccCHHHHHHHHH----------HhCCeEEEEecCCCCCHHHHHHHHHHHHHHhhcc
Q psy2300         138 MEDER----------------VISFERGKHLAE----------SLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       138 l~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                      +.+.+                ..+.+++..++.          ..++.++++||+++.||+.+|+.+.+.+.+...+
T Consensus       246 L~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~~l~  322 (327)
T 3ohm_A          246 LLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNLK  322 (327)
T ss_dssp             HHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             hhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHHhHH
Confidence            85432                356777777743          3456789999999999999999999999887543

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.86  E-value=3.8e-22  Score=166.11  Aligned_cols=154  Identities=19%  Similarity=0.217  Sum_probs=101.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccc--------hhh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTIT--------TAY   90 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~--------~~~   90 (221)
                      ..++|+++|.+|+|||||+|+|++..+. ....+..+.+.....+..++  ..+.+|||+|...+...+        ..+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhh
Confidence            4589999999999999999999987532 22233333333333444454  568999999975543322        235


Q ss_pred             ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC
Q psy2300          91 YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN  170 (221)
Q Consensus        91 ~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (221)
                      +..+|++++|+|++++.+... ..|+..+.     ..|+++|+||+|+.......  ....+.  .+.+++++||++|.|
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~G  370 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQG  370 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBS
T ss_pred             hhcCCEEEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCC
Confidence            788999999999998766554 34444442     47999999999997654432  111111  346899999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2300         171 VKGVFERLVDIICDK  185 (221)
Q Consensus       171 i~~l~~~i~~~~~~~  185 (221)
                      +++++++|.+.+...
T Consensus       371 i~eL~~~i~~~~~~~  385 (462)
T 3geh_A          371 IDSLETAILEIVQTG  385 (462)
T ss_dssp             HHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999998877543

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.86  E-value=1.1e-23  Score=177.45  Aligned_cols=159  Identities=16%  Similarity=0.153  Sum_probs=112.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..++|+++|++++|||||+++|.+..+.....++.+.++....+..+ ....++||||||++.|..++..++..+|++++
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vIL   81 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVIL   81 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEE
Confidence            45789999999999999999999876544444444433333333332 22368999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH-HHHHHH---HHHh--CCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF-ERGKHL---AESL--GVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~-~~~~~~---~~~~--~~~~~~~Sa~~~~gi~~  173 (221)
                      |+|+++.........| ..+..   .+.|++|++||+|+.+...... .+...+   +..+  .++++++||++|.|+++
T Consensus        82 VVDa~dg~~~qt~e~l-~~~~~---~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~e  157 (537)
T 3izy_P           82 VVAADDGVMKQTVESI-QHAKD---AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMA  157 (537)
T ss_dssp             ECBSSSCCCHHHHHHH-HHHHT---TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHH
T ss_pred             EEECCCCccHHHHHHH-HHHHH---cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchh
Confidence            9999986554443332 23332   4789999999999965322111 111111   1111  24799999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         174 VFERLVDIIC  183 (221)
Q Consensus       174 l~~~i~~~~~  183 (221)
                      ++++|...+.
T Consensus       158 Lle~I~~l~~  167 (537)
T 3izy_P          158 LAEATIALAE  167 (537)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHhhh
Confidence            9999887653

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.86  E-value=5.2e-22  Score=155.51  Aligned_cols=160  Identities=13%  Similarity=0.219  Sum_probs=92.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-c-------ccceeeeeEEEEEEeCCeEEEEEEEeCCCcc-------cc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-F-------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE-------RY   83 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~-------~~   83 (221)
                      ...++|+|+|.+|+|||||+|+|++...... +       .++.+.+.....+..++..+.+.+|||||..       .+
T Consensus         6 g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~   85 (274)
T 3t5d_A            6 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW   85 (274)
T ss_dssp             -CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTT
T ss_pred             ccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhH
Confidence            3579999999999999999999887654332 2       3444555555555444445789999999962       22


Q ss_pred             cccc-------hhhcc-------------CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          84 RTIT-------TAYYR-------------GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        84 ~~~~-------~~~~~-------------~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      ..+.       ..++.             .+|+++++++.........-..++..+..    +.|+++|+||+|+....+
T Consensus        86 ~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~e  161 (274)
T 3t5d_A           86 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPEE  161 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHHH
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHHH
Confidence            2222       22222             37799999976653222222334444433    799999999999854333


Q ss_pred             cCH--HHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         144 ISF--ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       144 ~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ...  +.........+++++++|+++++|+++++++|.+.+
T Consensus       162 ~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          162 CQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            221  234445556788999999999999999998876543

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.86  E-value=1.4e-20  Score=156.60  Aligned_cols=161  Identities=18%  Similarity=0.155  Sum_probs=107.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccccc-----------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTI-----------   86 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~-----------   86 (221)
                      +..++|+|+|++|||||||+++|++.... ....+..+.+.....+..++.  .+.+|||+|.......           
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHH
Confidence            35699999999999999999999987642 122222222233344555554  5789999996432211           


Q ss_pred             -chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-H----HhCCeE
Q psy2300          87 -TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-E----SLGVEF  160 (221)
Q Consensus        87 -~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-~----~~~~~~  160 (221)
                       ...++..+|++++|+|++++.+..+. .+...+..   .+.|+++++||+|+.+.+....++..... .    ..+.++
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  331 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL  331 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcE
Confidence             12356789999999999887665542 23333333   38999999999999765444343332222 2    234689


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         161 FETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      +++||++|.|++++|+.+.+.+.+.
T Consensus       332 ~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          332 IFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             EECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhh
Confidence            9999999999999999999877654

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.86  E-value=2.5e-21  Score=156.46  Aligned_cols=119  Identities=18%  Similarity=0.226  Sum_probs=91.6

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCC
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTYS-WDNAQVILVGNKCD  137 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~D  137 (221)
                      .+.+.+||++|++.++..|..++++++++|||+|+++          ..++.+...|+..+.... ..+.|++|++||+|
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~D  279 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTD  279 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChh
Confidence            4789999999999999999999999999999999998          778999888888876542 35899999999999


Q ss_pred             CCCCc----------------ccCHHHHHHHHH-----------HhCCeEEEEecCCCCCHHHHHHHHHHHHHHhhc
Q psy2300         138 MEDER----------------VISFERGKHLAE-----------SLGVEFFETSAKDNVNVKGVFERLVDIICDKMS  187 (221)
Q Consensus       138 l~~~~----------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~  187 (221)
                      +...+                ..+.+++..++.           ..++.+++|||+++.||+++|+++.+.+.+...
T Consensus       280 L~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~l  356 (362)
T 1zcb_A          280 LLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDNL  356 (362)
T ss_dssp             HHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHHHH
Confidence            85321                255667766652           345788999999999999999999999887654

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.86  E-value=1.1e-21  Score=159.36  Aligned_cols=147  Identities=12%  Similarity=0.048  Sum_probs=107.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      +|+++|++++|||||+++|+          ..+++.......+......+.+|||||++.|.......+..+|++|+|+|
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~----------~~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG----------KKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS----------EEEEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHH----------hCCEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc
Confidence            89999999999999999998          12222222222333344679999999999998777788899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhhCCCCCcE-EEEEe-CCCCCCCcccCH--HHHHHHHHHhC---CeEEE--EecCC---CCC
Q psy2300         103 VTNEESFTSIQDWITQIKTYSWDNAQV-ILVGN-KCDMEDERVISF--ERGKHLAESLG---VEFFE--TSAKD---NVN  170 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~~~~~~p~-ivv~n-K~Dl~~~~~~~~--~~~~~~~~~~~---~~~~~--~Sa~~---~~g  170 (221)
                       ++ ..+.....++..+...   +.|. ++++| |+|+ +......  ++...++...+   +++++  +||++   +.|
T Consensus        93 -~~-g~~~qt~e~~~~~~~~---~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~g  166 (370)
T 2elf_A           93 -PQ-GLDAHTGECIIALDLL---GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEG  166 (370)
T ss_dssp             -TT-CCCHHHHHHHHHHHHT---TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTT
T ss_pred             -CC-CCcHHHHHHHHHHHHc---CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCC
Confidence             43 3445555666655554   6777 89999 9999 5332221  34444444433   68999  99999   999


Q ss_pred             HHHHHHHHHHHHHHh
Q psy2300         171 VKGVFERLVDIICDK  185 (221)
Q Consensus       171 i~~l~~~i~~~~~~~  185 (221)
                      ++++++.|.+.+...
T Consensus       167 i~~L~~~l~~~~~~~  181 (370)
T 2elf_A          167 VDELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccc
Confidence            999999999887543

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.85  E-value=7.3e-22  Score=162.69  Aligned_cols=148  Identities=16%  Similarity=0.117  Sum_probs=105.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC--------CCCCc-------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD--------SFTSA-------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~--------~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      ...++|+++|++++|||||+++|++.        .+...       ...+.+++.......++.....+.+|||||++.|
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHH
Confidence            35799999999999999999999873        21110       0113344444444444444567999999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCccc---CHHHHHHHHHHhC--
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVI---SFERGKHLAESLG--  157 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~--  157 (221)
                      ...+..++..+|++|+|+|++++... ....++..+...   +.| +++++||+|+.+....   ..++...++..++  
T Consensus        89 ~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~~---~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  164 (405)
T 2c78_A           89 IKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFP  164 (405)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhccc
Confidence            88888889999999999999886543 334555555543   678 8999999999742211   1224555666655  


Q ss_pred             ---CeEEEEecCCCCC
Q psy2300         158 ---VEFFETSAKDNVN  170 (221)
Q Consensus       158 ---~~~~~~Sa~~~~g  170 (221)
                         ++++++||++|.|
T Consensus       165 ~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          165 GDEVPVIRGSALLALE  180 (405)
T ss_dssp             TTTSCEEECCHHHHHH
T ss_pred             ccCCCEEEccHHHhhh
Confidence               6899999999987

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.85  E-value=1.6e-21  Score=144.67  Aligned_cols=118  Identities=20%  Similarity=0.313  Sum_probs=89.1

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc---cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccC
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA---FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRG   93 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   93 (221)
                      +....++|+|+|++|+|||||+++|++..+...   ..++.+.         +...+.+.+|||||.+.+...+..++..
T Consensus        44 ~~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~  114 (193)
T 2ged_A           44 GGSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKT  114 (193)
T ss_dssp             --CCCCEEEEECCTTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCCHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCceee---------eecCCeEEEEECCCCchHHHHHHHHHHh
Confidence            345789999999999999999999999875431   1122211         1134578999999999888877777765


Q ss_pred             ----CcEEEEEEECC-ChhhHHHHHHHHHHHHhh----CCCCCcEEEEEeCCCCCCCcc
Q psy2300          94 ----AMGFILMYDVT-NEESFTSIQDWITQIKTY----SWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        94 ----~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~----~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                          +|++++|+|++ +..++..+..|+..+...    ...+.|+++|+||+|+.+...
T Consensus       115 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          115 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             HGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCC
T ss_pred             hcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCC
Confidence                89999999999 899999888887776543    235899999999999976543

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.85  E-value=1.6e-21  Score=160.24  Aligned_cols=159  Identities=16%  Similarity=0.121  Sum_probs=109.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC-------CCCc-------cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS-------FTSA-------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      ..++|+++|++++|||||+++|+...       +...       .....+++.......+......+.||||||++.|..
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHH
Confidence            35899999999999999999998741       1100       011223444433344444446799999999999888


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcc---cCHHHHHHHHHHhC----
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERV---ISFERGKHLAESLG----  157 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~---~~~~~~~~~~~~~~----  157 (221)
                      .+..++..+|++|+|+|+++....+.. .++..+...   +.| +++++||+|+.+...   ...++...++..++    
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~-e~l~~~~~~---~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~  157 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTR-EHLLLARQI---GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGE  157 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHH-HHHHHHHHT---TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTT
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHH-HHHHHHHHc---CCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcc
Confidence            888889999999999999985433333 333334332   788 789999999964221   11234556666665    


Q ss_pred             -CeEEEEecCCCCC----------HHHHHHHHHHHH
Q psy2300         158 -VEFFETSAKDNVN----------VKGVFERLVDII  182 (221)
Q Consensus       158 -~~~~~~Sa~~~~g----------i~~l~~~i~~~~  182 (221)
                       ++++++||++|.|          +.+++++|.+.+
T Consensus       158 ~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          158 ETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             TSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             cCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence             5899999999764          777777665543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.85  E-value=2.5e-21  Score=163.64  Aligned_cols=118  Identities=14%  Similarity=0.117  Sum_probs=84.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC------------------CCCc--cccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS------------------FTSA--FVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~------------------~~~~--~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ...+|+|+|++|+|||||+++|+...                  +...  .....+++.......+....+.+.||||||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG   91 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPG   91 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCC
Confidence            56899999999999999999996211                  0000  000122233222222333347899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      +..+...+..+++.+|++|+|+|+++.........|. .+..   .+.|+++|+||+|+...
T Consensus        92 ~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~Dl~~~  149 (528)
T 3tr5_A           92 HADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKMDRDTR  149 (528)
T ss_dssp             STTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECTTSCCS
T ss_pred             chhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCCCCccc
Confidence            9999988889999999999999999877666655453 3333   37999999999999654

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.85  E-value=7.3e-22  Score=160.10  Aligned_cols=167  Identities=14%  Similarity=0.258  Sum_probs=94.6

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCC-Cccc--------cceeeeeEEEEEEeCCeEEEEEEEeCCCc-------c
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFV--------STVGIDFKVKTVFRHDKRVKLQIWDTAGQ-------E   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~-~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~   81 (221)
                      ....++|+|+|++|+|||||+++|++.... ..+.        ++.+.......+..++..+.+.+|||||.       +
T Consensus        34 ~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e  113 (361)
T 2qag_A           34 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD  113 (361)
T ss_dssp             HCCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC------------
T ss_pred             CCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHH
Confidence            346799999999999999999998765432 2221        33343333333444455678999999998       6


Q ss_pred             cccccch-------hhccCC-------------cEEEEEEECCChhhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          82 RYRTITT-------AYYRGA-------------MGFILMYDVTNEESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        82 ~~~~~~~-------~~~~~~-------------d~vi~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      .+..++.       .++..+             ++++|+++.. ..++..+. .|+..+    ..+.|+++|+||+|+..
T Consensus       114 ~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~  188 (361)
T 2qag_A          114 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLT  188 (361)
T ss_dssp             --CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCC
Confidence            6666665       444433             3455555432 34444444 344433    25799999999999976


Q ss_pred             CcccCH--HHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhhcccc
Q psy2300         141 ERVISF--ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL  190 (221)
Q Consensus       141 ~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~  190 (221)
                      .+.+..  ++...++..++++++++||+++.| ++.|.++.+.+.+..+...
T Consensus       189 ~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip~~v  239 (361)
T 2qag_A          189 LKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIPFSV  239 (361)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTCSCEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCCCCE
Confidence            555443  355566666788999999999999 8999999999887765443

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.85  E-value=1.3e-20  Score=161.04  Aligned_cols=160  Identities=16%  Similarity=0.151  Sum_probs=107.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCc----cccceeeeeEEEEE------------EeCCeEEEEEEEeCCCcccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSA----FVSTVGIDFKVKTV------------FRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~----~~~~~~~~~~~~~~------------~~~~~~~~~~i~D~~g~~~~   83 (221)
                      +.++|+++|++++|||||+++|++..+...    ..++.+..+.....            ..+.....+.||||||++.|
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F   83 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHH
Confidence            357999999999999999999987643221    11122211111000            00011125899999999999


Q ss_pred             cccchhhccCCcEEEEEEECCC---hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-------------H-
Q psy2300          84 RTITTAYYRGAMGFILMYDVTN---EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-------------F-  146 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-------------~-  146 (221)
                      ..++..++..+|++|+|+|+++   +++++.+..    +..   .+.|+++++||+|+.......             . 
T Consensus        84 ~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~  156 (594)
T 1g7s_A           84 TTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQ  156 (594)
T ss_dssp             TTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHH
T ss_pred             HHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHH
Confidence            9999888999999999999998   555554432    223   379999999999985421100             0 


Q ss_pred             --H-------HHHHHHHHhC---------------CeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         147 --E-------RGKHLAESLG---------------VEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       147 --~-------~~~~~~~~~~---------------~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                        +       +........+               ++++++||++|.|+++++++|...+....
T Consensus       157 v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~~  220 (594)
T 1g7s_A          157 VQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (594)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccccc
Confidence              0       1111112222               37999999999999999999998776443

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.85  E-value=1.3e-21  Score=162.41  Aligned_cols=155  Identities=19%  Similarity=0.207  Sum_probs=104.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC--CCCCcc---------------------------ccceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD--SFTSAF---------------------------VSTVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~~---------------------------~~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|++++|||||+++|+..  .+....                           ....+++.......++...
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~   83 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK   83 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC
Confidence            35699999999999999999999864  222110                           0012333333333334445


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHH-------HHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDW-------ITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~-------~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      +.+.||||||++.|...+..++..+|++|+|+|+++ .+|+....|       ...+...  ...++++++||+|+.+..
T Consensus        84 ~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~--~~~~iivviNK~Dl~~~~  160 (435)
T 1jny_A           84 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTM--GLDQLIVAVNKMDLTEPP  160 (435)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHT--TCTTCEEEEECGGGSSST
T ss_pred             eEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHc--CCCeEEEEEEcccCCCcc
Confidence            689999999999999888889999999999999998 667644322       2222222  134699999999996521


Q ss_pred             ------ccCHHHHHHHHHHhC-----CeEEEEecCCCCCHHHHHH
Q psy2300         143 ------VISFERGKHLAESLG-----VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       143 ------~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l~~  176 (221)
                            ....++...++...+     ++++++||++|.|+.++++
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          161 YDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             ccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence                  112345566666665     6799999999999986654

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.85  E-value=7.7e-21  Score=157.84  Aligned_cols=157  Identities=21%  Similarity=0.188  Sum_probs=106.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCC---CCCc---------cccc-------------------eeeeeEEEEEEe
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDS---FTSA---------FVST-------------------VGIDFKVKTVFR   65 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~---~~~~---------~~~~-------------------~~~~~~~~~~~~   65 (221)
                      .....++|+++|++++|||||+++|+...   +...         ...+                   .+++.......+
T Consensus        20 ~~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~   99 (434)
T 1zun_B           20 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   99 (434)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             ccCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEe
Confidence            33567999999999999999999998653   1100         0011                   122222222223


Q ss_pred             CCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-
Q psy2300          66 HDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-  144 (221)
Q Consensus        66 ~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-  144 (221)
                      ......+.+|||||++.|...+..++..+|++|+|+|++++... ....++..+...  ...|+++++||+|+.+.... 
T Consensus       100 ~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~--~~~~iIvviNK~Dl~~~~~~~  176 (434)
T 1zun_B          100 STAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL--GIKHIVVAINKMDLNGFDERV  176 (434)
T ss_dssp             ECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT--TCCEEEEEEECTTTTTSCHHH
T ss_pred             ecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc--CCCeEEEEEEcCcCCcccHHH
Confidence            33446799999999999988888889999999999999986432 233444444443  12469999999999753211 


Q ss_pred             ---CHHHHHHHHHHhC-----CeEEEEecCCCCCHHHHHH
Q psy2300         145 ---SFERGKHLAESLG-----VEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       145 ---~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l~~  176 (221)
                         ..++...+++.++     ++++++||++|.|++++++
T Consensus       177 ~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          177 FESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence               1234556666666     6899999999999998544

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.84  E-value=8.4e-22  Score=164.82  Aligned_cols=159  Identities=15%  Similarity=0.095  Sum_probs=91.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcC--CCCCc---------------------------cccceeeeeEEEEEEeCC
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADD--SFTSA---------------------------FVSTVGIDFKVKTVFRHD   67 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~---------------------------~~~~~~~~~~~~~~~~~~   67 (221)
                      .....++|+++|+.++|||||+++|+..  .+...                           .....+++.......+..
T Consensus        39 ~~k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~  118 (467)
T 1r5b_A           39 YGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET  118 (467)
T ss_dssp             SCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC
T ss_pred             cCCCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEec
Confidence            3457899999999999999999999752  11100                           000112222222112222


Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCc-
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDER-  142 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~-  142 (221)
                      ....+.||||||++.|...+...+..+|++|+|+|+++..   +|+...+|...+......+.| ++|++||+|+.+.. 
T Consensus       119 ~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          119 EHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             SSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSS
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccc
Confidence            3467999999999999988888899999999999999862   332222222222211113677 99999999995421 


Q ss_pred             -----ccCHHHHHHHHHHh-------CCeEEEEecCCCCCHHHHH
Q psy2300         143 -----VISFERGKHLAESL-------GVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       143 -----~~~~~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~l~  175 (221)
                           ....++...++...       +++++++||++|.|+.+++
T Consensus       199 ~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                 11123455666555       3569999999999998866

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.84  E-value=2e-20  Score=150.66  Aligned_cols=121  Identities=15%  Similarity=0.260  Sum_probs=95.0

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT----------NEESFTSIQDWITQIKTYS-WDNAQVILVGNKC  136 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~  136 (221)
                      ..+.+.+|||+|++.++.+|..++++++++|+|+|++          +..++++...|+..+.... ..+.|++||+||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5689999999999999999999999999999999998          7789999988888876542 3589999999999


Q ss_pred             CCCCCcc--c-------------------CHHHHHHHHHH----------------hCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         137 DMEDERV--I-------------------SFERGKHLAES----------------LGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       137 Dl~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+.+.+.  +                   +.++...++..                ..+.+++|||+++.||+++|+++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9843221  1                   23555555432                123568999999999999999999


Q ss_pred             HHHHHhhcc
Q psy2300         180 DIICDKMSE  188 (221)
Q Consensus       180 ~~~~~~~~~  188 (221)
                      +.+.+...+
T Consensus       341 ~~I~~~~l~  349 (354)
T 2xtz_A          341 ETLRRRNLL  349 (354)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998876543

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.84  E-value=1.1e-21  Score=163.90  Aligned_cols=154  Identities=18%  Similarity=0.190  Sum_probs=102.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCC--------cccccccchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG--------QERYRTITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g--------~~~~~~~~~~~~   91 (221)
                      ...+|+|+|.+|||||||+|+|++..+. ....+++++...........+..+.+|||||        ++.+...+..++
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~-~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~  100 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERIS-IVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAM  100 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCc-ccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhH
Confidence            3579999999999999999999988753 3456677777777776666667899999999        666777778889


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCC-eEEEEecCCCCC
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGV-EFFETSAKDNVN  170 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  170 (221)
                      ..+|++|+|+|+.+.....  ..|+..+...  .+.|+++|+||+|+.+...    ...++. ..++ .++++||++|.|
T Consensus       101 ~~ad~il~VvD~~~~~~~~--d~~l~~~l~~--~~~pvilV~NK~D~~~~~~----~~~e~~-~lg~~~~~~iSA~~g~g  171 (456)
T 4dcu_A          101 DEADVIIFMVNGREGVTAA--DEEVAKILYR--TKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLG  171 (456)
T ss_dssp             HHCSEEEEEEESSSCSCHH--HHHHHHHHTT--CCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTT
T ss_pred             hhCCEEEEEEeCCCCCChH--HHHHHHHHHH--cCCCEEEEEECccchhhhh----hHHHHH-HcCCCceEEeecccccc
Confidence            9999999999987643322  2333333222  4899999999999854321    111111 2233 578999999999


Q ss_pred             HHHHHHHHHHHHH
Q psy2300         171 VKGVFERLVDIIC  183 (221)
Q Consensus       171 i~~l~~~i~~~~~  183 (221)
                      +.++++++.+.+.
T Consensus       172 v~~L~~~i~~~l~  184 (456)
T 4dcu_A          172 LGDLLDAVAEHFK  184 (456)
T ss_dssp             HHHHHHHHHTTGG
T ss_pred             hHHHHHHHHhhcc
Confidence            9999999877553

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.83  E-value=2.1e-21  Score=166.83  Aligned_cols=154  Identities=17%  Similarity=0.185  Sum_probs=102.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc-----------------------------cceeeeeEEEEEEeCCeE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV-----------------------------STVGIDFKVKTVFRHDKR   69 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~   69 (221)
                      ...++|+++|++|+|||||+++|+.........                             ...|++.......+....
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~  244 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  244 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC
Confidence            347899999999999999999998663211000                             012333333333333345


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SF---TSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.||||||++.|...+..++..+|++|+|+|++++.   ++   ......+..+...  ...|++||+||+|+.+...
T Consensus       245 ~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l--gi~~iIVVvNKiDl~~~~~  322 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQ  322 (611)
T ss_dssp             CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT--TCCEEEEEEECTTTTTTCH
T ss_pred             ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc--CCCeEEEEEecccccchhH
Confidence            68999999999999988888999999999999998742   11   1122222222222  2345999999999976333


Q ss_pred             cCHH----HHHHHHHHhC-----CeEEEEecCCCCCHHHH
Q psy2300         144 ISFE----RGKHLAESLG-----VEFFETSAKDNVNVKGV  174 (221)
Q Consensus       144 ~~~~----~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l  174 (221)
                      ...+    +...++...+     ++++++||++|.|+.++
T Consensus       323 ~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          323 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2222    2333444443     58999999999999876

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.83  E-value=1.7e-20  Score=149.60  Aligned_cols=117  Identities=23%  Similarity=0.252  Sum_probs=94.3

Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECC----------ChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVT----------NEESFTSIQDWITQIKTYS-WDNAQVILVGNKC  136 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~----------~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~  136 (221)
                      ..+.+++||++|++.++..|..++++++++|+|+|++          +..++.+...|+..+.... ..+.|++|++||+
T Consensus       159 ~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~  238 (340)
T 4fid_A          159 KDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKM  238 (340)
T ss_dssp             SSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECH
T ss_pred             eeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccCCCeEEEEEECc
Confidence            4578999999999999999999999999999999998          6788888888877775532 3589999999999


Q ss_pred             CCCCCc---------------ccCHHHHHHHHHH---------------------------hCCeEEEEecCCCCCHHHH
Q psy2300         137 DMEDER---------------VISFERGKHLAES---------------------------LGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       137 Dl~~~~---------------~~~~~~~~~~~~~---------------------------~~~~~~~~Sa~~~~gi~~l  174 (221)
                      |+.+.+               ..+.+++..++..                           ..+.++++||+++.+|+.+
T Consensus       239 DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~v  318 (340)
T 4fid_A          239 DLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSNIKRV  318 (340)
T ss_dssp             HHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHHHHHH
T ss_pred             hhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHHHHHH
Confidence            984311               1234555444432                           1367889999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         175 FERLVDIICD  184 (221)
Q Consensus       175 ~~~i~~~~~~  184 (221)
                      |+.+.+.+.+
T Consensus       319 F~~v~~~Il~  328 (340)
T 4fid_A          319 FMLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999988

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.83  E-value=4.7e-22  Score=166.31  Aligned_cols=152  Identities=18%  Similarity=0.222  Sum_probs=104.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +..+|+++|++++|||||+++|....+.....+.++.+.....+..+  +..+.||||||++.|..++...+..+|++++
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~--~~~i~~iDTPGhe~f~~~~~~~~~~aD~aIL   80 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYHVETE--NGMITFLDTPGHAAFTSMRARGAQATDIVVL   80 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCCCCTT--SSCCCEECCCTTTCCTTSBCSSSBSCSSEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEEEEEC--CEEEEEEECCCcHHHHHHHHHHHhhCCEEEE
Confidence            45789999999999999999998765433322222222222222222  3468999999999999999889999999999


Q ss_pred             EEECCCh---hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc--ccCHH--HHHHHHHHhC--CeEEEEecCCCCC
Q psy2300         100 MYDVTNE---ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER--VISFE--RGKHLAESLG--VEFFETSAKDNVN  170 (221)
Q Consensus       100 v~d~~~~---~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~--~~~~~~~~~~--~~~~~~Sa~~~~g  170 (221)
                      |+|+++.   ++.+.+    ..+..   .+.|+++++||+|+.+..  .+..+  +...+...++  ++++++||++|.|
T Consensus        81 VVda~~g~~~qT~e~l----~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~g  153 (501)
T 1zo1_I           81 VVAADDGVMPQTIEAI----QHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTG  153 (501)
T ss_dssp             EEETTTBSCTTTHHHH----HHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTT
T ss_pred             EeecccCccHHHHHHH----HHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccC
Confidence            9999883   333332    22222   378999999999996431  11100  0000111222  6899999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         171 VKGVFERLVD  180 (221)
Q Consensus       171 i~~l~~~i~~  180 (221)
                      ++++|++|..
T Consensus       154 I~eLle~I~~  163 (501)
T 1zo1_I          154 IDELLDAILL  163 (501)
T ss_dssp             CTTHHHHTTT
T ss_pred             cchhhhhhhh
Confidence            9999998763

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.83  E-value=1.3e-20  Score=168.49  Aligned_cols=160  Identities=17%  Similarity=0.113  Sum_probs=108.3

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC-------CCC-------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS-------FTS-------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY   83 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~   83 (221)
                      ....++|+++|++++|||||+++|++..       +..       ....+.+++.....+.++.....+.||||||++.|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            3467999999999999999999998641       000       11233455544433444445568999999999999


Q ss_pred             cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCccc---CHHHHHHHHHHhC--
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVI---SFERGKHLAESLG--  157 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~--  157 (221)
                      ...+...+..+|++|+|+|++++...+ ...++..+...   +.| ++|++||+|+.+....   ..++...++...+  
T Consensus       373 ~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~l---gIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~  448 (1289)
T 3avx_A          373 VKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQV---GVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFP  448 (1289)
T ss_dssp             HHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHHH---TCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHHc---CCCeEEEEEeecccccchhhHHHHHHHHHHHHHhcccc
Confidence            888888899999999999999864322 33344444443   678 7999999999753221   1234556666665  


Q ss_pred             ---CeEEEEecCCC--------CCHHHHHHHHHHH
Q psy2300         158 ---VEFFETSAKDN--------VNVKGVFERLVDI  181 (221)
Q Consensus       158 ---~~~~~~Sa~~~--------~gi~~l~~~i~~~  181 (221)
                         ++++++||++|        .|+.+++++|.+.
T Consensus       449 ~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~  483 (1289)
T 3avx_A          449 GDDTPIVRGSALKALEGDAEWEAKILELAGFLDSY  483 (1289)
T ss_dssp             TTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHT
T ss_pred             ccceeEEEEEeccCCCCCccccccchhhHhHHhhh
Confidence               58999999999        3577777766543

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.82  E-value=4.2e-21  Score=151.99  Aligned_cols=162  Identities=17%  Similarity=0.165  Sum_probs=102.8

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc------ccce-----------------e---eeeE-----------
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF------VSTV-----------------G---IDFK-----------   59 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~------~~~~-----------------~---~~~~-----------   59 (221)
                      +....++|+|+|.+|+|||||+++|++..+.+..      .|+.                 +   +++.           
T Consensus        22 ~~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~  101 (299)
T 2aka_B           22 ADLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETD  101 (299)
T ss_dssp             TTCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHH
Confidence            4456789999999999999999999998864211      1210                 0   0000           


Q ss_pred             ------------EEEEEeC-CeEEEEEEEeCCCcc-------------cccccchhhccCCcEEE-EEEECCChhhHHHH
Q psy2300          60 ------------VKTVFRH-DKRVKLQIWDTAGQE-------------RYRTITTAYYRGAMGFI-LMYDVTNEESFTSI  112 (221)
Q Consensus        60 ------------~~~~~~~-~~~~~~~i~D~~g~~-------------~~~~~~~~~~~~~d~vi-~v~d~~~~~s~~~~  112 (221)
                                  ...+.+. .....+.+|||||..             .+..+...++..++.++ +|+|+++..+....
T Consensus       102 ~i~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~  181 (299)
T 2aka_B          102 RVTGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  181 (299)
T ss_dssp             HHCSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH
T ss_pred             HhcccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH
Confidence                        0000000 012578999999953             33455666788888666 79999875444333


Q ss_pred             HHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH--hC-CeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         113 QDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES--LG-VEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       113 ~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~--~~-~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ..++..+..   .+.|+++|+||+|+.+......+........  .+ .+++++||++|.|+++++++|.+.
T Consensus       182 ~~~~~~~~~---~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          182 LKIAKEVDP---QGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             HHHHHHHCT---TCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             HHHHHHhCC---CCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            334444433   4799999999999965433222222210001  12 267899999999999999998873

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.82  E-value=9.4e-20  Score=136.89  Aligned_cols=162  Identities=15%  Similarity=0.135  Sum_probs=101.8

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----------ccc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----------YRT   85 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~~~   85 (221)
                      .+.....+|+++|++|||||||+++|++..+...+.++.+.+.....+..++   .+.+||+||...          +..
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~   97 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQR   97 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHH
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHH
Confidence            4556678999999999999999999998875455556666665544443333   477999999642          222


Q ss_pred             cchhhc---cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHHHHHHHhC--C
Q psy2300          86 ITTAYY---RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGKHLAESLG--V  158 (221)
Q Consensus        86 ~~~~~~---~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~--~  158 (221)
                      ....++   ..++++++++|+.++.+.... .....+..   .+.|+++++||+|+....+.  ....+..++...+  +
T Consensus        98 ~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~-~~~~~~~~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~  173 (210)
T 1pui_A           98 ALGEYLEKRQSLQGLVVLMDIRHPLKDLDQ-QMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDV  173 (210)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHH-HHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCE
T ss_pred             HHHHHHHhhhcccEEEEEEECCCCCchhHH-HHHHHHHH---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCC
Confidence            222333   578999999999886554321 12222222   37899999999998543211  1234445554444  4


Q ss_pred             eEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         159 EFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       159 ~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      .++++|++++.|+++++++|.+.+.+
T Consensus       174 ~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          174 QVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             ceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            78899999999999999998876543

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.81  E-value=1.8e-20  Score=156.49  Aligned_cols=152  Identities=14%  Similarity=0.125  Sum_probs=102.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC--CCCCc---------------------------cccceeeeeEEEEEEeCCeEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD--SFTSA---------------------------FVSTVGIDFKVKTVFRHDKRV   70 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~~   70 (221)
                      ..++|+++|++++|||||+++|+..  .+...                           .....+++.......++....
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~~   85 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKY   85 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSE
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCCc
Confidence            5699999999999999999999864  12110                           000122232222222333446


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hHH---HHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcc
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SFT---SIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERV  143 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~~---~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~  143 (221)
                      .+.||||||++.|...+..++..+|++|+|+|+++..   +|+   ....++..+...   +.| ++|++||+|+.+...
T Consensus        86 ~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~---~v~~iivviNK~Dl~~~~~  162 (458)
T 1f60_A           86 QVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSVKWDE  162 (458)
T ss_dssp             EEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGGTTCH
T ss_pred             eEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHc---CCCeEEEEEEccccccCCH
Confidence            8999999999999988888999999999999998753   221   222333333332   565 999999999963211


Q ss_pred             ----cCHHHHHHHHHHhC-----CeEEEEecCCCCCHHHH
Q psy2300         144 ----ISFERGKHLAESLG-----VEFFETSAKDNVNVKGV  174 (221)
Q Consensus       144 ----~~~~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~l  174 (221)
                          ...++...++..++     ++++++||++|.|+.++
T Consensus       163 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          163 SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence                11234555555555     68999999999999755

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.80  E-value=2.8e-20  Score=159.45  Aligned_cols=154  Identities=17%  Similarity=0.197  Sum_probs=83.7

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCC--CC-C--------------------------ccccceeeeeEEEEEEeC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDS--FT-S--------------------------AFVSTVGIDFKVKTVFRH   66 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~-~--------------------------~~~~~~~~~~~~~~~~~~   66 (221)
                      ......++|+++|++++|||||+++|+...  +. .                          ......+++.......+.
T Consensus       172 ~~~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~  251 (592)
T 3mca_A          172 SNPKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFE  251 (592)
T ss_dssp             SCCCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-----------------------------------------------
T ss_pred             ccCCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEE
Confidence            344568999999999999999999996421  00 0                          000122444444444444


Q ss_pred             CeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHhhCCCCCc-EEEEEeCCCCC
Q psy2300          67 DKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SF---TSIQDWITQIKTYSWDNAQ-VILVGNKCDME  139 (221)
Q Consensus        67 ~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~  139 (221)
                      .....+.||||||++.|...+...+..+|++|+|+|++++.   ++   ......+..+...   +.| +|||+||+|+.
T Consensus       252 ~~~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l---gip~iIvviNKiDl~  328 (592)
T 3mca_A          252 SDKKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL---GISEIVVSVNKLDLM  328 (592)
T ss_dssp             -------CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS---SCCCEEEEEECGGGG
T ss_pred             eCCeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc---CCCeEEEEEeccccc
Confidence            45578999999999999988888999999999999998632   11   1112222233332   565 99999999996


Q ss_pred             CCcccCH----HHHHHHH-HHhCC-----eEEEEecCCCCCHH
Q psy2300         140 DERVISF----ERGKHLA-ESLGV-----EFFETSAKDNVNVK  172 (221)
Q Consensus       140 ~~~~~~~----~~~~~~~-~~~~~-----~~~~~Sa~~~~gi~  172 (221)
                      +......    .+...+. ...++     +++++||++|.|+.
T Consensus       329 ~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          329 SWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            5222111    2233333 33343     79999999999998

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.79  E-value=9e-19  Score=143.73  Aligned_cols=161  Identities=13%  Similarity=0.154  Sum_probs=111.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----ccccchh---hccCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YRTITTA---YYRGAM   95 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~~---~~~~~d   95 (221)
                      .|+|+|++|||||||++++++........+..+.......+..+. ...+.+||++|...    +..+...   .+..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            489999999999999999998753111111111122222333332 24688999999632    2222222   345799


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      .+++|+|++ ...+.++..|...+..+.  ....|.++++||+|+...  ...+.........++.++.+||++++|+++
T Consensus       238 ~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~e  314 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPA  314 (416)
T ss_dssp             EEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHH
Confidence            999999998 566777777777765543  136899999999999654  223444555555678999999999999999


Q ss_pred             HHHHHHHHHHHhhc
Q psy2300         174 VFERLVDIICDKMS  187 (221)
Q Consensus       174 l~~~i~~~~~~~~~  187 (221)
                      ++++|.+.+.+...
T Consensus       315 L~~~i~~~l~~~~~  328 (416)
T 1udx_A          315 LKEALHALVRSTPP  328 (416)
T ss_dssp             HHHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHhccc
Confidence            99999999876543

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.79  E-value=6.3e-19  Score=153.07  Aligned_cols=118  Identities=9%  Similarity=0.016  Sum_probs=83.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC----cc---------cc---ceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTS----AF---------VS---TVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~----~~---------~~---~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      .+...+|+|+|+.|+|||||+++|++.....    ..         .+   ..++++......+....+.+.+|||||+.
T Consensus         6 ~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~   85 (665)
T 2dy1_A            6 GAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSG
T ss_pred             cCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCcc
Confidence            3456899999999999999999998543210    00         00   11233333333333345789999999999


Q ss_pred             cccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          82 RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        82 ~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      .+...+..+++.+|++++|+|+.+....... .++..+...   +.|+++++||+|+.
T Consensus        86 ~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~-~~~~~~~~~---~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           86 DFVGEIRGALEAADAALVAVSAEAGVQVGTE-RAWTVAERL---GLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCSCHHHH-HHHHHHHHT---TCCEEEEEECGGGC
T ss_pred             chHHHHHHHHhhcCcEEEEEcCCcccchhHH-HHHHHHHHc---cCCEEEEecCCchh
Confidence            9988888899999999999998876443333 444444443   79999999999986

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.78  E-value=2.1e-18  Score=145.96  Aligned_cols=118  Identities=14%  Similarity=0.130  Sum_probs=79.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC--CCC------------------ccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS--FTS------------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~--~~~------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      ..++|+++|++|+|||||+++|+...  +..                  ....+.+++.......+....+.+.+|||||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG   91 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPG   91 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECCC
Confidence            56899999999999999999998632  100                  0011223333222222333447899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      +..|...+..++..+|++|+|+|+++..... ...++..+..   .+.|+++++||+|+...
T Consensus        92 ~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~~~---~~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           92 HEDFSEDTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVTRL---RDTPILTFMNKLDRDIR  149 (529)
T ss_dssp             STTCCHHHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHHTT---TTCCEEEEEECTTSCCS
T ss_pred             ChhHHHHHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHHHH---cCCCEEEEEcCcCCccc
Confidence            9998888888999999999999998864322 2223333322   48999999999998653

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.78  E-value=1.7e-18  Score=134.61  Aligned_cols=125  Identities=12%  Similarity=0.138  Sum_probs=83.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhcc-----
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYR-----   92 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~-----   92 (221)
                      ...++|+|+|.+|+|||||+++|++..+.. ...+..+.......+..++  ..+.+|||||+..+......+++     
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGG--FTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECC--eeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            357999999999999999999999887422 2112222222333333333  57999999998877655544443     


Q ss_pred             ----CCcEEEEEEECCChhhHHHH-HHHHHHHHhhCCCC--CcEEEEEeCCCCCCCcccCH
Q psy2300          93 ----GAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDN--AQVILVGNKCDMEDERVISF  146 (221)
Q Consensus        93 ----~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~--~p~ivv~nK~Dl~~~~~~~~  146 (221)
                          .+|++++|++++... +... ..|+..+......+  .|+++|+||+|+...+....
T Consensus       112 l~~~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~  171 (262)
T 3def_A          112 LVNRTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSY  171 (262)
T ss_dssp             TTTCEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCH
T ss_pred             HhcCCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccH
Confidence                789999999987654 3322 35666665543222  49999999999964433333

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.77  E-value=1.2e-18  Score=151.91  Aligned_cols=118  Identities=19%  Similarity=0.195  Sum_probs=82.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC--ccc------------cceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS--FTS--AFV------------STVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~--~~~------------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      +...+|+|+|++|+|||||+++|+...  +..  ...            ...+.+.......+....+.+.+|||||+..
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~d   89 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVD   89 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccc
Confidence            467999999999999999999998421  100  000            0112222221222222346899999999999


Q ss_pred             ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          83 YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        83 ~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +...+..++..+|++|+|+|+++.........|... ...   +.|+++++||+|+..
T Consensus        90 f~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~-~~~---~~p~ivviNKiD~~~  143 (691)
T 1dar_A           90 FTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA-EKY---KVPRIAFANKMDKTG  143 (691)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HHT---TCCEEEEEECTTSTT
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHH-HHc---CCCEEEEEECCCccc
Confidence            888888899999999999999998777766656543 332   799999999999864

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.77  E-value=3.1e-18  Score=149.32  Aligned_cols=164  Identities=18%  Similarity=0.257  Sum_probs=107.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceee------------eeE--------------------------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGI------------DFK--------------------------   59 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~------------~~~--------------------------   59 (221)
                      ...++|+|+|.+|+|||||+|+|++..+.+ ...+++..            +..                          
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            357999999999999999999999887533 22222210            000                          


Q ss_pred             ---------------EEEEEeCCeE--EEEEEEeCCCccc---ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHH
Q psy2300          60 ---------------VKTVFRHDKR--VKLQIWDTAGQER---YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI  119 (221)
Q Consensus        60 ---------------~~~~~~~~~~--~~~~i~D~~g~~~---~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l  119 (221)
                                     ...+..+...  ..+.+|||||...   ....+..++..+|++|+|+|++++.+..+...|...+
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l  226 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYI  226 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHT
T ss_pred             HHHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHH
Confidence                           0001111100  2589999999553   3345567889999999999999887777665555444


Q ss_pred             HhhCCCCCcEEEEEeCCCCCCCcccCHH----------HHHH-----HHHH--------hCCeEEEEecC----------
Q psy2300         120 KTYSWDNAQVILVGNKCDMEDERVISFE----------RGKH-----LAES--------LGVEFFETSAK----------  166 (221)
Q Consensus       120 ~~~~~~~~p~ivv~nK~Dl~~~~~~~~~----------~~~~-----~~~~--------~~~~~~~~Sa~----------  166 (221)
                      ..   .+.|+++|+||+|+.....++.+          ....     +...        ...+++++||+          
T Consensus       227 ~~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~  303 (695)
T 2j69_A          227 KG---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNP  303 (695)
T ss_dssp             TT---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCT
T ss_pred             Hh---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCc
Confidence            33   26789999999998543311110          1111     1111        12368999999          


Q ss_pred             ----CCCCHHHHHHHHHHHHHHh
Q psy2300         167 ----DNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       167 ----~~~gi~~l~~~i~~~~~~~  185 (221)
                          ++.|+++++++|.+.+...
T Consensus       304 ~~~~~~~Gi~~L~~~L~~~l~~~  326 (695)
T 2j69_A          304 QADLDGTGFPKFMDSLNTFLTRE  326 (695)
T ss_dssp             TCCCTTSSHHHHHHHHHHHHHHT
T ss_pred             hhhhhccCHHHHHHHHHHHHHHh
Confidence                9999999999998877543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.76  E-value=6.4e-18  Score=131.93  Aligned_cols=126  Identities=13%  Similarity=0.118  Sum_probs=82.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchh-------h-
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTA-------Y-   90 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~-------~-   90 (221)
                      ...++|+|+|.+|+|||||+++|++..+.. ..+..+.+..............+.+|||||...+......       + 
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVS-ISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSC-CCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccc-ccCCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            357999999999999999999999877532 1222333333333333333467999999998765433221       1 


Q ss_pred             -ccCCcEEEEEEECCChhhHHHH-HHHHHHHHhhCCCC--CcEEEEEeCCCCCCCcccCH
Q psy2300          91 -YRGAMGFILMYDVTNEESFTSI-QDWITQIKTYSWDN--AQVILVGNKCDMEDERVISF  146 (221)
Q Consensus        91 -~~~~d~vi~v~d~~~~~s~~~~-~~~~~~l~~~~~~~--~p~ivv~nK~Dl~~~~~~~~  146 (221)
                       ...+|+++||+|++.. ++... ..|+..+......+  .|+++|+||+|+......+.
T Consensus       116 ~~~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~  174 (270)
T 1h65_A          116 LDKTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  174 (270)
T ss_dssp             TTCEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             hcCCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCH
Confidence             2479999999998653 23322 35666665443222  69999999999965544333

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.75  E-value=6.4e-19  Score=139.51  Aligned_cols=166  Identities=14%  Similarity=0.247  Sum_probs=88.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcC-CCCCccc--------cceeeeeEEEEEEeCCeEEEEEEEeCCCc-------c
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADD-SFTSAFV--------STVGIDFKVKTVFRHDKRVKLQIWDTAGQ-------E   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~-~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~-------~   81 (221)
                      .+..++|+|+|++|+|||||+++|.+. .++....        ++............++....+++||++|.       +
T Consensus        15 ~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e   94 (301)
T 2qnr_A           15 KGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRD   94 (301)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC----------
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHH
Confidence            345799999999999999999998875 4433321        11111111122222333468999999997       5


Q ss_pred             cccccch-------hhccC-------------CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          82 RYRTITT-------AYYRG-------------AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        82 ~~~~~~~-------~~~~~-------------~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      .+..+..       .++..             +++++|+.+.+.. ++.....  ..+.... ...++++|+||.|+...
T Consensus        95 ~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~~--~~l~~l~-~~~~iilV~~K~Dl~~~  170 (301)
T 2qnr_A           95 CFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLDV--AFMKAIH-NKVNIVPVIAKADTLTL  170 (301)
T ss_dssp             -CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHHH--HHHHHHT-TTSCEEEEECCGGGSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHHH--HHHHHHH-hcCCEEEEEEeCCCCCH
Confidence            5554443       33322             2345555553321 2222221  2222222 36799999999999764


Q ss_pred             cccC--HHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHhhcc
Q psy2300         142 RVIS--FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       142 ~~~~--~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                      +++.  .++...++..++++++++||+++ |++++|.++.+.+.+..+.
T Consensus       171 ~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p~  218 (301)
T 2qnr_A          171 KERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIPF  218 (301)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCSE
T ss_pred             HHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCCc
Confidence            4332  35667788888999999999999 9999999999988765543

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.75  E-value=3.6e-18  Score=136.09  Aligned_cols=163  Identities=15%  Similarity=0.169  Sum_probs=96.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc----cce---eeeeE--------------------------------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV----STV---GIDFK--------------------------------   59 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~----~~~---~~~~~--------------------------------   59 (221)
                      ....+|+|+|.+|+|||||+|+|++..+.+...    ..+   ..+..                                
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHH
Confidence            456899999999999999999999987632211    011   00000                                


Q ss_pred             ------------------EEEEE-eCCeEEEEEEEeCCCccc-------------ccccchhhccCCcEEEEEEECCChh
Q psy2300          60 ------------------VKTVF-RHDKRVKLQIWDTAGQER-------------YRTITTAYYRGAMGFILMYDVTNEE  107 (221)
Q Consensus        60 ------------------~~~~~-~~~~~~~~~i~D~~g~~~-------------~~~~~~~~~~~~d~vi~v~d~~~~~  107 (221)
                                        ...+. .......+.||||||...             +......++..+|++++|+|..+..
T Consensus       102 i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~  181 (315)
T 1jwy_B          102 IIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD  181 (315)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC
T ss_pred             HHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcc
Confidence                              00000 001124689999999643             3455666789999999999974322


Q ss_pred             -hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecC---C---CCCHHHHHHHHHH
Q psy2300         108 -SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAK---D---NVNVKGVFERLVD  180 (221)
Q Consensus       108 -s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---~---~~gi~~l~~~i~~  180 (221)
                       .......+...+.   ..+.|+++|+||+|+........+.........+..++++++.   +   +.|+.++++.+.+
T Consensus       182 ~~~~~~~~i~~~~~---~~~~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~  258 (315)
T 1jwy_B          182 LANSDALQLAKEVD---PEGKRTIGVITKLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEIL  258 (315)
T ss_dssp             STTCSHHHHHHHHC---SSCSSEEEEEECTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHH
T ss_pred             hhhhHHHHHHHHhC---CCCCcEEEEEcCcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHH
Confidence             1111112333332   2479999999999996544322222221101112456665554   4   7889999998877


Q ss_pred             HHHH
Q psy2300         181 IICD  184 (221)
Q Consensus       181 ~~~~  184 (221)
                      .+..
T Consensus       259 ~~~~  262 (315)
T 1jwy_B          259 YFKN  262 (315)
T ss_dssp             HHHT
T ss_pred             HHhC
Confidence            7654

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.75  E-value=1.1e-18  Score=141.60  Aligned_cols=161  Identities=16%  Similarity=0.138  Sum_probs=105.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCcccccee---eee--------------------------------------
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG---IDF--------------------------------------   58 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~---~~~--------------------------------------   58 (221)
                      ...+|+|+|.+|||||||+++|++..+.+......+   +..                                      
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            445999999999999999999999876332221110   000                                      


Q ss_pred             -----------EEEEEEe-CCeEEEEEEEeCCCcccc-------------cccchhhccCCcEEEEEEECCChhhHHHHH
Q psy2300          59 -----------KVKTVFR-HDKRVKLQIWDTAGQERY-------------RTITTAYYRGAMGFILMYDVTNEESFTSIQ  113 (221)
Q Consensus        59 -----------~~~~~~~-~~~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~  113 (221)
                                 ....+.+ ......+.+|||||...+             ..+...++..+|++|+|+|..+.....  .
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~  190 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--S  190 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--C
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--H
Confidence                       0001100 001235899999997655             455667889999999999875433221  2


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         114 DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       114 ~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .|+..+......+.|+++|+||+|+........+....+....+.+|+++++.++.++++.+..+....
T Consensus       191 ~~~~l~~~~~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~~  259 (360)
T 3t34_A          191 DAIKISREVDPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAARK  259 (360)
T ss_dssp             HHHHHHHHSCTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHHH
T ss_pred             HHHHHHHHhcccCCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHHH
Confidence            344444444445789999999999976544444444444444567899999999988887766544443

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.75  E-value=3.3e-17  Score=142.97  Aligned_cols=119  Identities=18%  Similarity=0.134  Sum_probs=83.4

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC--cc------------ccceeeeeEE--EEEEeC-----CeEEEEEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS--FTS--AF------------VSTVGIDFKV--KTVFRH-----DKRVKLQI   74 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~--~~------------~~~~~~~~~~--~~~~~~-----~~~~~~~i   74 (221)
                      .+...+|+|+|+.|+|||||+++|+...  +..  ..            ....+++...  ..+...     +..+.+.|
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~l   86 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINI   86 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEE
Confidence            3567899999999999999999997531  110  00            0012222222  222222     23378999


Q ss_pred             EeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          75 WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        75 ~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      |||||+..|...+..+++.+|++|+|+|+++.........|.. ...   .+.|+++++||+|+..
T Consensus        87 iDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~---~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           87 IDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANK---YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             EeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHH---cCCCEEEEEeCCCccc
Confidence            9999999988888889999999999999998765555444433 222   3799999999999854

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.74  E-value=9e-18  Score=146.41  Aligned_cols=118  Identities=19%  Similarity=0.180  Sum_probs=83.4

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcC--CCCCc--------ccc------ceeeeeE--EEEEEeCCeEEEEEEEeCCC
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADD--SFTSA--------FVS------TVGIDFK--VKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~--~~~~~--------~~~------~~~~~~~--~~~~~~~~~~~~~~i~D~~g   79 (221)
                      .+...+|+|+|++|+|||||+++|+..  .+...        ...      ..+++..  ...+...  .+.+.+|||||
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~--~~~i~liDTPG   84 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWE--GHRVNIIDTPG   84 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEET--TEEEEEECCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEEC--CeeEEEEECcC
Confidence            356789999999999999999999852  21100        000      1122221  2223332  46799999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      +..+...+..+++.+|++|+|+|+++..+......|.. +...   +.|+++|+||+|+...
T Consensus        85 ~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~~---~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           85 HVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATTY---GVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             CSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH-HHHT---TCCEEEEEECTTSTTC
T ss_pred             CcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH-HHHc---CCCEEEEEECCCcccc
Confidence            99888888889999999999999998777766655544 3333   7999999999998643

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.74  E-value=2.4e-18  Score=140.82  Aligned_cols=85  Identities=20%  Similarity=0.252  Sum_probs=47.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCcccccee--eeeEEEEE-------------------EeCC-eEEEEEEEeCCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG--IDFKVKTV-------------------FRHD-KRVKLQIWDTAG   79 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~--~~~~~~~~-------------------~~~~-~~~~~~i~D~~g   79 (221)
                      ++|+++|.+|+|||||+|+|++........+..+  .......+                   .+++ ..+.+.||||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG   80 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCC
Confidence            5899999999999999999998873222222111  11111111                   1122 247899999999


Q ss_pred             ccc----ccccch---hhccCCcEEEEEEECCCh
Q psy2300          80 QER----YRTITT---AYYRGAMGFILMYDVTNE  106 (221)
Q Consensus        80 ~~~----~~~~~~---~~~~~~d~vi~v~d~~~~  106 (221)
                      ...    ...+..   .+++.+|++++|+|+++.
T Consensus        81 ~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTCC
T ss_pred             cccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            743    222222   357899999999999875

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.74  E-value=1.1e-18  Score=138.17  Aligned_cols=134  Identities=20%  Similarity=0.180  Sum_probs=109.4

Q ss_pred             HHHHHHhcCCCC-CccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh-hHHHHH
Q psy2300          36 SFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE-SFTSIQ  113 (221)
Q Consensus        36 sli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~  113 (221)
                      +|+.+++.+.|. ..+.||.+..+. ..+..++   .+.+||+  ++.+..++..+++++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688888888887 778899884443 3332222   6889999  8999999999999999999999999987 788888


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEecCCCCCHHHHHHHHHH
Q psy2300         114 DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       114 ~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      .|+..+..   .+.|+++|+||+|+.+.+.+  ++...++..++  ++++++||++|.|++++|.++..
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            89988765   38999999999999664432  45667777777  89999999999999999988753

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.74  E-value=8.6e-18  Score=136.92  Aligned_cols=126  Identities=21%  Similarity=0.205  Sum_probs=100.2

Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCC----------hhhHHHHHHHHHHHHhhC-CCCCcE
Q psy2300          61 KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTN----------EESFTSIQDWITQIKTYS-WDNAQV  129 (221)
Q Consensus        61 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~----------~~s~~~~~~~~~~l~~~~-~~~~p~  129 (221)
                      ..+.+++  +.+.+|||+|++.++..|..++++++++|||||+++          ..+|.+...|+..+.... ..+.|+
T Consensus       210 ~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~pi  287 (402)
T 1azs_C          210 TKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISV  287 (402)
T ss_dssp             EEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCE
T ss_pred             EEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeE
Confidence            3444443  789999999999999999999999999999999998          889999999999887653 468999


Q ss_pred             EEEEeCCCCCCCcc---c---------------------------CHHHHHHHH-----HH--------hCCeEEEEecC
Q psy2300         130 ILVGNKCDMEDERV---I---------------------------SFERGKHLA-----ES--------LGVEFFETSAK  166 (221)
Q Consensus       130 ivv~nK~Dl~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~Sa~  166 (221)
                      +||+||+|+...+.   +                           ..+++..++     ..        ..+.+++|||+
T Consensus       288 iLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~  367 (402)
T 1azs_C          288 ILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAV  367 (402)
T ss_dssp             EEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTT
T ss_pred             EEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEee
Confidence            99999999843322   1                           134454443     22        24567899999


Q ss_pred             CCCCHHHHHHHHHHHHHHhhcc
Q psy2300         167 DNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                      ++.||+++|.++.+.+.+....
T Consensus       368 d~~nV~~vF~~v~~~I~~~~l~  389 (402)
T 1azs_C          368 DTENIRRVFNDCRDIIQRMHLR  389 (402)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCcCHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988876543

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.71  E-value=1.6e-17  Score=136.46  Aligned_cols=160  Identities=13%  Similarity=0.198  Sum_probs=81.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc--------ccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-----
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF--------VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-----   84 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-----   84 (221)
                      ....++|+|+|++|+|||||++.|++..++...        .++.........+...+....+++||++|.....     
T Consensus        28 ~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~  107 (418)
T 2qag_C           28 RGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC  107 (418)
T ss_dssp             -CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------
T ss_pred             cCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhh
Confidence            345789999999999999999999988753211        1111111111111112223578999999965421     


Q ss_pred             --c------------------cchhhccCCcEEEEEEECCCh-hhHHHHH-HHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          85 --T------------------ITTAYYRGAMGFILMYDVTNE-ESFTSIQ-DWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        85 --~------------------~~~~~~~~~d~vi~v~d~~~~-~s~~~~~-~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                        .                  +...++..+++.+++|..... .++.... .|+..+.    .+.|+|+|+||+|+...+
T Consensus       108 ~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~  183 (418)
T 2qag_C          108 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPE  183 (418)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHH
Confidence              1                  112334455543334433321 2333333 4665553    379999999999997655


Q ss_pred             ccCH--HHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         143 VISF--ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       143 ~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .+..  ..+..++..++++++++|++++.++.++|..+...
T Consensus       184 ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          184 ECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCCCC-----------------
T ss_pred             HHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence            5443  55677778889999999999999999877766543

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.69  E-value=3e-17  Score=124.21  Aligned_cols=155  Identities=15%  Similarity=0.146  Sum_probs=95.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--------------eEEEEEEe----------------CCeE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--------------FKVKTVFR----------------HDKR   69 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--------------~~~~~~~~----------------~~~~   69 (221)
                      ...+|+|+|.+|+|||||+++|+..............+              .....+..                ....
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            45799999999999999999998653211101100000              01111111                0122


Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      +.+.+|||+|.-...   ..+....+.+++|+|+.+....  ...+..   ..   +.|+++|+||+|+.+......++.
T Consensus       109 ~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~--~~~~~~---~~---~~~~iiv~NK~Dl~~~~~~~~~~~  177 (221)
T 2wsm_A          109 CDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDV--VEKHPE---IF---RVADLIVINKVALAEAVGADVEKM  177 (221)
T ss_dssp             CSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTH--HHHCHH---HH---HTCSEEEEECGGGHHHHTCCHHHH
T ss_pred             CCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchh--hhhhhh---hh---hcCCEEEEecccCCcchhhHHHHH
Confidence            467899998841100   0111256889999998765321  111111   11   578999999999854322345566


Q ss_pred             HHHHHHh--CCeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         150 KHLAESL--GVEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       150 ~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ..++...  +.+++++||++|.|+++++++|.+.+...
T Consensus       178 ~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          178 KADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            6666554  36899999999999999999998877544

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.69  E-value=1.4e-18  Score=140.72  Aligned_cols=159  Identities=17%  Similarity=0.132  Sum_probs=93.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc------ccee--------------------eee--------------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV------STVG--------------------IDF--------------   58 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~------~~~~--------------------~~~--------------   58 (221)
                      ...++|+|+|.+|+|||||+++|++..+.+...      |+..                    .++              
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            356899999999999999999999987642211      1100                    000              


Q ss_pred             ---------EEEEEEeC-CeEEEEEEEeCCCcc-------------cccccchhhccCCc-EEEEEEECCChhhHHHHHH
Q psy2300          59 ---------KVKTVFRH-DKRVKLQIWDTAGQE-------------RYRTITTAYYRGAM-GFILMYDVTNEESFTSIQD  114 (221)
Q Consensus        59 ---------~~~~~~~~-~~~~~~~i~D~~g~~-------------~~~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~  114 (221)
                               ....+.+. .....+.||||||..             .+..+...++..++ ++++|+|++....-.....
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~  188 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  188 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHH
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHH
Confidence                     00001110 012569999999953             23345556665554 5556667654322122222


Q ss_pred             HHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH--HHHHhCC-eEEEEecCCCCCHHHHHHHHHH
Q psy2300         115 WITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH--LAESLGV-EFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       115 ~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~--~~~~~~~-~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ++..   ....+.|+++|+||+|+.+......+....  +....++ +++++||+++.|++++++++.+
T Consensus       189 i~~~---~~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          189 VAKE---VDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHH---HCTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHH---hCcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            3333   333589999999999996543211111110  0001232 5778999999999999999876

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.68  E-value=1.2e-15  Score=122.76  Aligned_cols=146  Identities=17%  Similarity=0.148  Sum_probs=90.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccccc--
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQERYR--   84 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~--   84 (221)
                      ++|+++|.+|+|||||+|+|++..+.....|..+.......+.+++.               ...+.+|||||.....  
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~   82 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccccc
Confidence            68999999999999999999987743332222221111112333332               1479999999976542  


Q ss_pred             --cc---chhhccCCcEEEEEEECCCh----------hhHHHHHHHHHHH------------------------------
Q psy2300          85 --TI---TTAYYRGAMGFILMYDVTNE----------ESFTSIQDWITQI------------------------------  119 (221)
Q Consensus        85 --~~---~~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~l------------------------------  119 (221)
                        .+   ...+++.+|++++|+|+++.          +.+.++..+...+                              
T Consensus        83 ~~gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~  162 (363)
T 1jal_A           83 GEGLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFEL  162 (363)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHH
Confidence              22   23357899999999999852          2333332211111                              


Q ss_pred             ----------Hh-------------------h-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300         120 ----------KT-------------------Y-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus       120 ----------~~-------------------~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                                ..                   + ....+|+++++|+.|..-...........++...+.+++++||+.
T Consensus       163 ~~l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          163 SVMEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence                      10                   1 123589999999999642212335667778878889999999753

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.67  E-value=3.7e-16  Score=132.74  Aligned_cols=118  Identities=15%  Similarity=0.081  Sum_probs=83.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC------------------CC--CccccceeeeeEEEEEEeCCeEEEEEEEeCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS------------------FT--SAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG   79 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~------------------~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g   79 (221)
                      +.-+|+|+|+.++|||||..+|+...                  +.  .......+++.....+.+.++++.++|+||||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPG  109 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPG  109 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCC
Confidence            46789999999999999999986321                  00  01112224444333344444557899999999


Q ss_pred             cccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      +..|..-....++-+|++|+|+|+.+.-..+....|.... ..   +.|.++++||+|.+..
T Consensus       110 HvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~-~~---~lp~i~fINK~Dr~~a  167 (548)
T 3vqt_A          110 HQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCR-MR---ATPVMTFVNKMDREAL  167 (548)
T ss_dssp             GGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHH-HT---TCCEEEEEECTTSCCC
T ss_pred             cHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHHHHHH-Hh---CCceEEEEecccchhc
Confidence            9999988888999999999999999876555555564443 33   8999999999998653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.66  E-value=1.1e-18  Score=132.47  Aligned_cols=154  Identities=16%  Similarity=0.151  Sum_probs=93.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeE------------EEEEEeC-CeE-----------------
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK------------VKTVFRH-DKR-----------------   69 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~------------~~~~~~~-~~~-----------------   69 (221)
                      ..++|+|+|.+|+|||||+++|+...+.....++.+.++.            ...+.++ +..                 
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            5689999999999999999999987654434444433322            1111111 110                 


Q ss_pred             --EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHH
Q psy2300          70 --VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFE  147 (221)
Q Consensus        70 --~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  147 (221)
                        ..+.++|++|.-..   ...+-...+.++.++|+........  .....   .   +.|.++|+||+|+.+......+
T Consensus       117 ~~~d~~~id~~g~i~~---~~s~~~~~~~~~~v~~~~~~~~~~~--~~~~~---~---~~~~iiv~NK~Dl~~~~~~~~~  185 (226)
T 2hf9_A          117 DEIDLLFIENVGNLIC---PADFDLGTHKRIVVISTTEGDDTIE--KHPGI---M---KTADLIVINKIDLADAVGADIK  185 (226)
T ss_dssp             GGCSEEEEECCSCSSG---GGGCCCSCSEEEEEEEGGGCTTTTT--TCHHH---H---TTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCCCEEEEeCCCCccC---cchhhhccCcEEEEEecCcchhhHh--hhhhH---h---hcCCEEEEeccccCchhHHHHH
Confidence              13445555552100   0011123455667777532111100  00011   1   5788999999998654334566


Q ss_pred             HHHHHHHHh--CCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         148 RGKHLAESL--GVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       148 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      +...++...  +.+++++||++|.|++++|++|.+.+..
T Consensus       186 ~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          186 KMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            666666654  5789999999999999999999887754

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.64  E-value=2.3e-16  Score=127.71  Aligned_cols=104  Identities=13%  Similarity=0.093  Sum_probs=69.5

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--H
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--E  147 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~  147 (221)
                      +.+.||||||..   ......+..+|++++|+|....+.+..+..      .  ....|.++|+||+|+.+......  .
T Consensus       172 ~~~iiiDTpGi~---~~~~~~~~~aD~vl~V~d~~~~~~~~~l~~------~--~~~~p~ivVlNK~Dl~~~~~~~~~~~  240 (355)
T 3p32_A          172 FDVILIETVGVG---QSEVAVANMVDTFVLLTLARTGDQLQGIKK------G--VLELADIVVVNKADGEHHKEARLAAR  240 (355)
T ss_dssp             CCEEEEEECSCS---SHHHHHHTTCSEEEEEEESSTTCTTTTCCT------T--SGGGCSEEEEECCCGGGHHHHHHHHH
T ss_pred             CCEEEEeCCCCC---cHHHHHHHhCCEEEEEECCCCCccHHHHHH------h--HhhcCCEEEEECCCCcChhHHHHHHH
Confidence            578999999943   223344688999999999876544322211      0  12469999999999854322111  1


Q ss_pred             HHHHHHHHh-------CCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         148 RGKHLAESL-------GVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       148 ~~~~~~~~~-------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      +........       +.+++++||++|.|+++++++|.+.+..
T Consensus       241 ~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          241 ELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            111111111       4689999999999999999999888755

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.62  E-value=1.5e-15  Score=134.90  Aligned_cols=118  Identities=14%  Similarity=0.149  Sum_probs=86.0

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC------------CCC----cccc--ceeeeeEEEEEE------------eCC
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS------------FTS----AFVS--TVGIDFKVKTVF------------RHD   67 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~------------~~~----~~~~--~~~~~~~~~~~~------------~~~   67 (221)
                      .+...+|+|+|+.++|||||+++|+...            +..    +...  |+........+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            3467899999999999999999998641            100    0011  111111111221            133


Q ss_pred             eEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          68 KRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        68 ~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ..+.+.||||||+..|...+..+++.+|++|+|+|++++.++.....|.....    .+.|+++++||+|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            47889999999999999999999999999999999999888877666655443    379999999999985

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.61  E-value=3.1e-16  Score=133.31  Aligned_cols=121  Identities=22%  Similarity=0.282  Sum_probs=81.9

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCC---CccccceeeeeEEEEEEeCC------e----------------E--
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFT---SAFVSTVGIDFKVKTVFRHD------K----------------R--   69 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~------~----------------~--   69 (221)
                      +.+..++|+|+|.+|+|||||+|+|++..+.   ....++.  +........+.      .                +  
T Consensus        61 ~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T--~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~  138 (550)
T 2qpt_A           61 DFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTT--DCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNT  138 (550)
T ss_dssp             TTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCC--CSEEEEECCSSSEEECCC------------------C
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCcc--ceEEEEEECCcccccCCceeeecCcccHHHHhhhccc
Confidence            3456789999999999999999999998763   2222222  11110000000      0                0  


Q ss_pred             ---------------EEEEEEeCCCccc-----------ccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC
Q psy2300          70 ---------------VKLQIWDTAGQER-----------YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS  123 (221)
Q Consensus        70 ---------------~~~~i~D~~g~~~-----------~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~  123 (221)
                                     ..+.||||||...           +...+..++..+|++|+|+|+++.........|+..+..  
T Consensus       139 ~~~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~--  216 (550)
T 2qpt_A          139 FLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG--  216 (550)
T ss_dssp             CCTTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT--
T ss_pred             ccccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh--
Confidence                           2588999999754           334556678899999999999875444555566665544  


Q ss_pred             CCCCcEEEEEeCCCCCCCc
Q psy2300         124 WDNAQVILVGNKCDMEDER  142 (221)
Q Consensus       124 ~~~~p~ivv~nK~Dl~~~~  142 (221)
                       .+.|+++|+||+|+....
T Consensus       217 -~~~pvilVlNK~Dl~~~~  234 (550)
T 2qpt_A          217 -HEDKIRVVLNKADMVETQ  234 (550)
T ss_dssp             -CGGGEEEEEECGGGSCHH
T ss_pred             -cCCCEEEEEECCCccCHH
Confidence             368999999999986543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.60  E-value=9.5e-16  Score=123.68  Aligned_cols=102  Identities=12%  Similarity=0.108  Sum_probs=62.3

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      +.+.++||+|....   .......+|++++|+|+.++.....+..   .+     -..|.++|+||+|+.+..... ...
T Consensus       167 ~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~~-~~~  234 (349)
T 2www_A          167 YDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPAR-RIQ  234 (349)
T ss_dssp             CSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHHH-HHH
T ss_pred             CCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhHH-HHH
Confidence            56889999995311   2335678999999999987543222211   11     146889999999985321110 011


Q ss_pred             HHHHH----------HhCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         150 KHLAE----------SLGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       150 ~~~~~----------~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ..+..          ....+++.+||++|.|+++++++|.+.+.
T Consensus       235 ~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          235 AEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            12211          11357899999999999999999988764

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.59  E-value=3.3e-15  Score=120.81  Aligned_cols=155  Identities=18%  Similarity=0.139  Sum_probs=93.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-------------------eEEEEEEEeCCCccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-------------------KRVKLQIWDTAGQER   82 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~g~~~   82 (221)
                      ++|+++|.+|+|||||+++|++........+..+.........++.                   ....+.+|||||...
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~   81 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVK   81 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccc
Confidence            6899999999999999999998642211111111111111112211                   235799999999765


Q ss_pred             cc----ccc---hhhccCCcEEEEEEECCCh----------hhHHHHHHHHHH---------------------------
Q psy2300          83 YR----TIT---TAYYRGAMGFILMYDVTNE----------ESFTSIQDWITQ---------------------------  118 (221)
Q Consensus        83 ~~----~~~---~~~~~~~d~vi~v~d~~~~----------~s~~~~~~~~~~---------------------------  118 (221)
                      ..    .+.   ..+++.+|++++|+|+++.          +.+.++..+...                           
T Consensus        82 ~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~~~  161 (368)
T 2dby_A           82 GAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERL  161 (368)
T ss_dssp             CCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGH
T ss_pred             cccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchhHH
Confidence            42    222   2357899999999999751          122222111110                           


Q ss_pred             ------------HHhh--------------------CCCCCcEEEEEeCCCC--CCC-cccCHHHHHHHHHHhCCeEEEE
Q psy2300         119 ------------IKTY--------------------SWDNAQVILVGNKCDM--EDE-RVISFERGKHLAESLGVEFFET  163 (221)
Q Consensus       119 ------------l~~~--------------------~~~~~p~ivv~nK~Dl--~~~-~~~~~~~~~~~~~~~~~~~~~~  163 (221)
                                  +...                    ....+|+++++||.|.  .+. .....+....++...+.+++++
T Consensus       162 ~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~i  241 (368)
T 2dby_A          162 PLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVV  241 (368)
T ss_dssp             HHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEE
T ss_pred             HHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEe
Confidence                        0000                    0124799999999974  222 1234566778888888999999


Q ss_pred             ecCCCCCHHHHHH
Q psy2300         164 SAKDNVNVKGVFE  176 (221)
Q Consensus       164 Sa~~~~gi~~l~~  176 (221)
                      ||+.+.++.++.+
T Consensus       242 SAk~E~el~eL~~  254 (368)
T 2dby_A          242 SARLEAELAELSG  254 (368)
T ss_dssp             CHHHHHHHHTSCH
T ss_pred             echhHHHHHHhch
Confidence            9988665555443

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.57  E-value=1.6e-14  Score=116.85  Aligned_cols=154  Identities=12%  Similarity=0.075  Sum_probs=97.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-------ccchhhc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-------TITTAYY   91 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------~~~~~~~   91 (221)
                      ....+|++||.||+|||||+|+|++........|..+.+.....+.+++  .+++++||||.-.-.       ......+
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i  147 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVA  147 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHH
Confidence            3457899999999999999999999874444444444444444444444  578999999942211       1122356


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCC--------CcccCHHHHHHHHHHhCCeEE
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMED--------ERVISFERGKHLAESLGVEFF  161 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~--------~~~~~~~~~~~~~~~~~~~~~  161 (221)
                      +.+|++++|+|++++.  .........+....  ....|.++++||.|...        ....+.++.......+.+..-
T Consensus       148 ~~ad~il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~k  225 (376)
T 4a9a_A          148 RTCNLLFIILDVNKPL--HHKQIIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSA  225 (376)
T ss_dssp             HHCSEEEEEEETTSHH--HHHHHHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSE
T ss_pred             HhcCccccccccCccH--HHHHHHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCC
Confidence            8899999999999874  22333333333322  24678899999999632        223455666666666555333


Q ss_pred             EEecCCCCCHHHHHH
Q psy2300         162 ETSAKDNVNVKGVFE  176 (221)
Q Consensus       162 ~~Sa~~~~gi~~l~~  176 (221)
                      ++-...+...+++.+
T Consensus       226 pv~~~~nv~eddl~d  240 (376)
T 4a9a_A          226 EIAFRCDATVDDLID  240 (376)
T ss_dssp             EEEECSCCCHHHHHH
T ss_pred             CeeecccCCHHHHHH
Confidence            344445556666554

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.54  E-value=9.8e-16  Score=132.54  Aligned_cols=115  Identities=16%  Similarity=0.133  Sum_probs=84.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC--CCCC--------------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD--SFTS--------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~--~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      -+|+|+|+.++|||||..+|+..  ....              ......|++.......+.++++.++++|||||..|..
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHH
Confidence            46899999999999999998631  1100              0011125555555555566678899999999999998


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      .....++-+|++|+|+|+.+.-..+....|.... ..   +.|.++++||+|...
T Consensus        83 Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~-~~---~lp~i~~INKmDr~~  133 (638)
T 3j25_A           83 EVYRSLSVLDGAILLISAKDGVQAQTRILFHALR-KM---GIPTIFFINKIDQNG  133 (638)
T ss_dssp             HHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHH-HH---TCSCEECCEECCSSS
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHH-Hc---CCCeEEEEecccccc
Confidence            8888999999999999999864444444444443 33   799999999999754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.54  E-value=3.9e-15  Score=119.84  Aligned_cols=104  Identities=15%  Similarity=0.160  Sum_probs=65.4

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--  146 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--  146 (221)
                      ++.+.||||||......   .....+|++++|+|++....+..+..     ..   .+.|.++|+||+|+.+......  
T Consensus       148 ~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~-----~~---~~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK-----GL---MEVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH-----HH---HHHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH-----hh---hcccCEEEEECCCCCChHHHHHHH
Confidence            35789999999643322   24689999999999876543211111     01   1468899999999965322111  


Q ss_pred             HHHHHHHHHh-------CCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         147 ERGKHLAESL-------GVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       147 ~~~~~~~~~~-------~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ++........       ..+++++||++|.|+++++++|.+.+.
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            1122222221       347899999999999999999988764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.53  E-value=4.1e-14  Score=109.60  Aligned_cols=108  Identities=17%  Similarity=0.031  Sum_probs=67.7

Q ss_pred             EEEEEEeCCCcccccccch------hhccCCcEEEEEEECCChhhHHHHHH---HH-HHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          70 VKLQIWDTAGQERYRTITT------AYYRGAMGFILMYDVTNEESFTSIQD---WI-TQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~------~~~~~~d~vi~v~d~~~~~s~~~~~~---~~-~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      +.+.||||||.........      ..+.. +++++++|+...........   +. .....   .+.|+++|+||+|+.
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~---~~~p~~iv~NK~D~~  184 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDLL  184 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGGC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcc---cCCCeEEEEeccccc
Confidence            5789999999765432221      23456 88999998754322222211   11 11122   268999999999986


Q ss_pred             CCcccCHHHHHHH----------------------------HHHhC--CeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         140 DERVISFERGKHL----------------------------AESLG--VEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       140 ~~~~~~~~~~~~~----------------------------~~~~~--~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .....  ++...+                            +...+  .+++++||++++|+++++++|.+.+.
T Consensus       185 ~~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          185 SEEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             CHHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ccccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            54321  111111                            23333  47999999999999999999987764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.52  E-value=3.4e-13  Score=118.11  Aligned_cols=119  Identities=18%  Similarity=0.152  Sum_probs=82.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCC--------CCC--------ccccceeeeeE--EEEEEeC-----CeEEEEEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDS--------FTS--------AFVSTVGIDFK--VKTVFRH-----DKRVKLQI   74 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~--------~~~--------~~~~~~~~~~~--~~~~~~~-----~~~~~~~i   74 (221)
                      -++.-+|+|+|+.++|||||..+|+...        ...        ..+...+++..  ..++...     .+.+.+++
T Consensus        10 ~~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNl   89 (709)
T 4fn5_A           10 INRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNV   89 (709)
T ss_dssp             GGGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEE
T ss_pred             hHHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEE
Confidence            3567789999999999999999986321        000        01112233333  3333332     23588999


Q ss_pred             EeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          75 WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        75 ~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      +|||||..|..-....++-+|++|+|+|+...-..+....|......    +.|.++++||+|...
T Consensus        90 IDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~~  151 (709)
T 4fn5_A           90 IDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQG  151 (709)
T ss_dssp             ECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSSTT
T ss_pred             EeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEccccccC
Confidence            99999999988888899999999999999986555555455555444    799999999999753

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.51  E-value=1.8e-14  Score=125.43  Aligned_cols=158  Identities=16%  Similarity=0.179  Sum_probs=96.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-cccccee------------------------------------------
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVG------------------------------------------   55 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~------------------------------------------   55 (221)
                      -...+|+|+|.+++|||||+|+|++..+.+ .....+.                                          
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            356799999999999999999999987622 1111100                                          


Q ss_pred             ------eeeE--EEEEEeCCeEEEEEEEeCCCccc-------------ccccchhhc-cCCcEEEEEEECCChhhHHHHH
Q psy2300          56 ------IDFK--VKTVFRHDKRVKLQIWDTAGQER-------------YRTITTAYY-RGAMGFILMYDVTNEESFTSIQ  113 (221)
Q Consensus        56 ------~~~~--~~~~~~~~~~~~~~i~D~~g~~~-------------~~~~~~~~~-~~~d~vi~v~d~~~~~s~~~~~  113 (221)
                            .+..  ...+...+ ..++.|+||||...             +..+...++ ..+|++++|+|+++.....+..
T Consensus       129 ~g~~~~is~~~i~l~I~~P~-~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPH-VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETT-CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH
T ss_pred             cCCCCcccccceEEEEecCC-CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH
Confidence                  0000  11111111 12578999999432             222333444 5789999999998753322322


Q ss_pred             HHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH-H-HHHhC-CeEEEEecCCCCCHHHHHHHHHH
Q psy2300         114 DWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH-L-AESLG-VEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       114 ~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~-~~~~~-~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      .++..+..   .+.|+++|+||+|+............. . ....+ .+++.+||++|.|++++++.+.+
T Consensus       208 ~ll~~L~~---~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          208 KIAKEVDP---QGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             HHHHHHCT---TCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             HHHHHHHh---cCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            33333433   479999999999996543332211110 0 00012 25778999999999999998876

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.46  E-value=2.1e-13  Score=107.84  Aligned_cols=97  Identities=16%  Similarity=0.183  Sum_probs=79.9

Q ss_pred             cccccccchhhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-HHHHHHHHHHhC
Q psy2300          80 QERYRTITTAYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-FERGKHLAESLG  157 (221)
Q Consensus        80 ~~~~~~~~~~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~  157 (221)
                      ++++..+.+.++.++|++++|+|++++. ++..+..|+..+..   .+.|+++|+||+|+.+...+. .++...++...+
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g  142 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAG  142 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTT
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCC
Confidence            5677788888999999999999999986 88888889887765   389999999999996543222 344556666778


Q ss_pred             CeEEEEecCCCCCHHHHHHHHH
Q psy2300         158 VEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       158 ~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ++++++||++|.|++++++.+.
T Consensus       143 ~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          143 YDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             CEEEECCTTTCTTHHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHhhcc
Confidence            9999999999999999998764

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.43  E-value=2.3e-13  Score=109.25  Aligned_cols=104  Identities=14%  Similarity=0.107  Sum_probs=63.6

Q ss_pred             EEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHH
Q psy2300          69 RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFER  148 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  148 (221)
                      ++.+.|+||+|....   .......+|++++|+|+...+....+...   +.     ..+.++++||+|+..........
T Consensus       147 ~~~~iliDT~Gi~~~---~~~v~~~~d~vl~v~d~~~~~~~~~i~~~---i~-----~~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQS---ETAVADLTDFFLVLMLPGAGDELQGIKKG---IF-----ELADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSC---HHHHHTTSSEEEEEECSCC------CCTT---HH-----HHCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcc---hhhHHhhCCEEEEEEcCCCcccHHHHHHH---Hh-----ccccEEEEEchhccCchhHHHHH
Confidence            357899999996422   12345789999999998654322111111   11     24567778999974332222222


Q ss_pred             HHHHHHHh----------CCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         149 GKHLAESL----------GVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       149 ~~~~~~~~----------~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      .+.+....          ..+++.+|++++.|++++++.|.+...
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            23332211          347899999999999999999988654

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.41  E-value=1.3e-13  Score=101.63  Aligned_cols=106  Identities=9%  Similarity=-0.022  Sum_probs=70.4

Q ss_pred             CCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHH----HHHHhhC-CCCCcEEEEEeCC-CCCCCcccCHHHHHH
Q psy2300          78 AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWI----TQIKTYS-WDNAQVILVGNKC-DMEDERVISFERGKH  151 (221)
Q Consensus        78 ~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~----~~l~~~~-~~~~p~ivv~nK~-Dl~~~~~~~~~~~~~  151 (221)
                      +|++..+.+|..|+.++|++|||+|.+|.+.++ ....+    ..+.... ..+.|++|++||. |++++  .+..++.+
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A--ms~~EI~e  186 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAH  186 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB--CCHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC--CCHHHHHH
Confidence            478899999999999999999999999875544 33333    2222221 3689999999995 77553  44444433


Q ss_pred             HHHH----hCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         152 LAES----LGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       152 ~~~~----~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ....    ..+.+..|||++|+|+.+-++||.+.+..++
T Consensus       187 ~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          187 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  225 (227)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC-
T ss_pred             HcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhhc
Confidence            3221    2467899999999999999999987765443

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.35  E-value=1.6e-11  Score=99.93  Aligned_cols=86  Identities=20%  Similarity=0.203  Sum_probs=58.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQER-   82 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~-   82 (221)
                      ...+|+|+|++|+|||||+|+|++... .....|..+.......+.+.+.               ...+.+||++|... 
T Consensus        19 ~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~   98 (392)
T 1ni3_A           19 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   98 (392)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccC
Confidence            457899999999999999999999765 3444444443334444444431               13588999999432 


Q ss_pred             ------ccccchhhccCCcEEEEEEECCC
Q psy2300          83 ------YRTITTAYYRGAMGFILMYDVTN  105 (221)
Q Consensus        83 ------~~~~~~~~~~~~d~vi~v~d~~~  105 (221)
                            ........++.+|++++|+|+.+
T Consensus        99 ~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           99 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                  22233445689999999999763

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.33  E-value=1.1e-12  Score=106.64  Aligned_cols=88  Identities=18%  Similarity=0.184  Sum_probs=51.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQERYR   84 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~~~   84 (221)
                      ..++|+++|.+|+|||||+|+|++..+.....|..+.......+.+++.               ...+.+||+||.....
T Consensus        21 ~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~a  100 (396)
T 2ohf_A           21 TSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGA  100 (396)
T ss_dssp             SCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCccccc
Confidence            4689999999999999999999988754444444444444444444332               2359999999976533


Q ss_pred             c-------cchhhccCCcEEEEEEECCChh
Q psy2300          85 T-------ITTAYYRGAMGFILMYDVTNEE  107 (221)
Q Consensus        85 ~-------~~~~~~~~~d~vi~v~d~~~~~  107 (221)
                      .       .+..+++.+|++++|+|+.+..
T Consensus       101 s~~~glg~~~l~~ir~aD~Il~VvD~~~~~  130 (396)
T 2ohf_A          101 HNGQGLGNAFLSHISACDGIFHLTRAFEDD  130 (396)
T ss_dssp             ------CCHHHHHHHTSSSEEEEEEC----
T ss_pred             chhhHHHHHHHHHHHhcCeEEEEEecCCCc
Confidence            2       3456789999999999987643

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.30  E-value=2.5e-12  Score=99.24  Aligned_cols=108  Identities=7%  Similarity=-0.019  Sum_probs=74.9

Q ss_pred             CCCcccccccchhhccCCcEEEEEEECCChhhHH---HHHHHHHHHHhh-CCCCCcEEEEEeC-CCCCCCcccCHHHHHH
Q psy2300          77 TAGQERYRTITTAYYRGAMGFILMYDVTNEESFT---SIQDWITQIKTY-SWDNAQVILVGNK-CDMEDERVISFERGKH  151 (221)
Q Consensus        77 ~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~---~~~~~~~~l~~~-~~~~~p~ivv~nK-~Dl~~~~~~~~~~~~~  151 (221)
                      .+|++..+.+|..|+.++|++|||+|.+|.+.++   ++..+...+... ...+.|++|++|| .|++++  .+..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHHH
Confidence            4678899999999999999999999999976544   222222333222 1358999999996 688654  34444433


Q ss_pred             HHHH----hCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         152 LAES----LGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       152 ~~~~----~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ....    ..+.+..|||++|+|+.+-++||.+.+.+++
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k~  310 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  310 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC--
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhhc
Confidence            3221    2357899999999999999999998775443

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.99  E-value=4.8e-11  Score=96.83  Aligned_cols=142  Identities=11%  Similarity=0.112  Sum_probs=82.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC----CCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc----c---chhh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS----FTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT----I---TTAY   90 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----~---~~~~   90 (221)
                      .+|+++|.+|+|||||+|+|++..    -.......++++.....+..+..   +.++||||......    +   ....
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~  239 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLKI  239 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHHH
Confidence            579999999999999999999761    01222233455555555554433   78999999432211    1   1112


Q ss_pred             c---cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          91 Y---RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        91 ~---~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      +   ...+.++++++....-.+..+..    +......+.|+++++||.|..+..... .....+.+..+..+.+.++.+
T Consensus       240 ~~~~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~~-~~~~~~~~~~g~~l~p~~~~~  314 (369)
T 3ec1_A          240 ITPKREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKLE-KADSLYANQLGELLSPPSKRY  314 (369)
T ss_dssp             HSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEGG-GHHHHHHHHBTTTBCSSCGGG
T ss_pred             HhcccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccHH-HHHHHHHHhcCCccCCCCchh
Confidence            2   67899999998743211111110    111112478999999999986543332 223334445565555555554


Q ss_pred             CCCH
Q psy2300         168 NVNV  171 (221)
Q Consensus       168 ~~gi  171 (221)
                      ..++
T Consensus       315 ~~~~  318 (369)
T 3ec1_A          315 AAEF  318 (369)
T ss_dssp             TTTC
T ss_pred             hhhc
Confidence            4444

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.97  E-value=1.1e-09  Score=88.90  Aligned_cols=96  Identities=20%  Similarity=0.381  Sum_probs=72.1

Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH----HHH
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH----LAE  154 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~~~  154 (221)
                      ..+.|..+...+.+.++++++|+|+.++.     ..|...+.+.. .+.|+++|+||+|+.... ...+...+    ++.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHH
Confidence            35678888888889999999999999863     34555555543 478999999999996432 22333333    355


Q ss_pred             HhCC---eEEEEecCCCCCHHHHHHHHHHH
Q psy2300         155 SLGV---EFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       155 ~~~~---~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ..++   .++.+||++|.|++++++.|.+.
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~  157 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYY  157 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhh
Confidence            6676   79999999999999999998654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.93  E-value=9e-10  Score=92.38  Aligned_cols=151  Identities=13%  Similarity=0.108  Sum_probs=85.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHh------cCCCCC----ccccc-----------eeeeeEEEEEE-------------e
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYA------DDSFTS----AFVST-----------VGIDFKVKTVF-------------R   65 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~------~~~~~~----~~~~~-----------~~~~~~~~~~~-------------~   65 (221)
                      ....|+|+|.+|+||||++++|.      +....-    .+.+.           .+..+......             .
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~~  179 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKF  179 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998      332100    00000           01111110000             0


Q ss_pred             CCeEEEEEEEeCCCccccc-ccchh---h--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcE-EEEEeCCCC
Q psy2300          66 HDKRVKLQIWDTAGQERYR-TITTA---Y--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQV-ILVGNKCDM  138 (221)
Q Consensus        66 ~~~~~~~~i~D~~g~~~~~-~~~~~---~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~-ivv~nK~Dl  138 (221)
                      ....+.+.|+||||..... .++..   .  +..+|.+++|+|+.......   .....+..    ..|+ ++|+||+|.
T Consensus       180 ~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~----~~~i~gvVlNK~D~  252 (504)
T 2j37_W          180 KNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKD----KVDVASVIVTKLDG  252 (504)
T ss_dssp             HHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHH----HHCCCCEEEECTTS
T ss_pred             HHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHh----hcCceEEEEeCCcc
Confidence            0023578999999965321 11111   1  23789999999998754321   22222322    2574 899999998


Q ss_pred             CCCcccCHHHHHHHHHHhCCeE------------------EEEecCCCCC-HHHHHHHHHHH
Q psy2300         139 EDERVISFERGKHLAESLGVEF------------------FETSAKDNVN-VKGVFERLVDI  181 (221)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~------------------~~~Sa~~~~g-i~~l~~~i~~~  181 (221)
                      ......    ........+.|+                  +.+|+..|.| +.++++++.+.
T Consensus       253 ~~~~g~----~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          253 HAKGGG----ALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCCCTH----HHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             ccchHH----HHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            643221    222233444443                  3468899999 99999988765

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.92  E-value=4e-09  Score=86.46  Aligned_cols=116  Identities=16%  Similarity=0.268  Sum_probs=60.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCcccc--ceeeeeEEEEEEeCCe--EEEEEEEeCCCcccc-------c-----
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVS--TVGIDFKVKTVFRHDK--RVKLQIWDTAGQERY-------R-----   84 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~--~~~~~i~D~~g~~~~-------~-----   84 (221)
                      .++++|+|++|+|||||++.|++..+......  ..+.......+.....  ...++++|++|....       .     
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHH
Confidence            46799999999999999999998754322111  1122222222222222  236889999873211       0     


Q ss_pred             --ccchh----h---------ccCC--c-EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300          85 --TITTA----Y---------YRGA--M-GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus        85 --~~~~~----~---------~~~~--d-~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                        ..+..    +         +..+  | +++|+.|+..+-+..++ .++..+.    .+.|+|+|.||+|....
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Di-eilk~L~----~~~~vI~Vi~KtD~Lt~  191 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDL-VTMKKLD----SKVNIIPIIAKADAISK  191 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHH-HHHHHTC----SCSEEEEEESCGGGSCH
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHH-HHHHHHh----hCCCEEEEEcchhccch
Confidence              00101    1         1122  2 35566666543332222 2233332    48999999999997543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.90  E-value=6.6e-11  Score=95.98  Aligned_cols=136  Identities=10%  Similarity=0.095  Sum_probs=76.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCC-----CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc----cchh---
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSF-----TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT----ITTA---   89 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~----~~~~---   89 (221)
                      .+|+++|.+|+|||||+|+|.+...     ........++|.....+.....   +.++||||......    +...   
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            5799999999999999999988631     1223344566666666655433   78999999532221    1111   


Q ss_pred             -h--ccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEec
Q psy2300          90 -Y--YRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSA  165 (221)
Q Consensus        90 -~--~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  165 (221)
                       +  ....+.++++++......+..+..    +......+.|+++++||+|..+.... ......+.+..+..+.+.++
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  311 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPTP  311 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSCH
T ss_pred             HhccccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCch
Confidence             1  356788999998742211111100    11111247899999999998654332 12233333444544444443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.87  E-value=4.3e-09  Score=81.74  Aligned_cols=137  Identities=17%  Similarity=0.214  Sum_probs=70.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccc------c-ceeeeeEEEEEEeCCeE--EEEEEEeCCCcccc-------c
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFV------S-TVGIDFKVKTVFRHDKR--VKLQIWDTAGQERY-------R   84 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~------~-~~~~~~~~~~~~~~~~~--~~~~i~D~~g~~~~-------~   84 (221)
                      .++++|+|++|+|||||++.|++...+..-.      + ..........+......  ..++++|++|....       .
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            4899999999999999999998754322100      0 00001111222222222  36789999873110       0


Q ss_pred             ccc---------------------hhhccCCcEEEEEEECC-ChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          85 TIT---------------------TAYYRGAMGFILMYDVT-NEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        85 ~~~---------------------~~~~~~~d~vi~v~d~~-~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      .+.                     ...+..+++.++++|.. .+-.-.+ ...+..+..    ..++++|++|+|.....
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~----~~~vI~Vi~K~D~lt~~  156 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSK----VVNIIPVIAKADTMTLE  156 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHT----TSEEEEEETTGGGSCHH
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHh----cCcEEEEEeccccCCHH
Confidence            000                     01123468888888854 2222222 233344432    38999999999975543


Q ss_pred             ccCH--HHHHHHHHHhCCeEEE
Q psy2300         143 VISF--ERGKHLAESLGVEFFE  162 (221)
Q Consensus       143 ~~~~--~~~~~~~~~~~~~~~~  162 (221)
                      +...  .........+++.+|+
T Consensus       157 e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          157 EKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHcCccccC
Confidence            2211  2233334556666653

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.83  E-value=2.9e-09  Score=86.33  Aligned_cols=97  Identities=16%  Similarity=0.321  Sum_probs=70.4

Q ss_pred             CcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH----HHH
Q psy2300          79 GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH----LAE  154 (221)
Q Consensus        79 g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~~~  154 (221)
                      .++.|..+...++..++++++|+|+.++.+     .|...+.... .+.|+++|+||+|+.... ...+...+    ++.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLPRS-VKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHH
Confidence            467788888888899999999999999763     3333343332 378999999999996532 22233333    345


Q ss_pred             HhCC---eEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         155 SLGV---EFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       155 ~~~~---~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ..++   .++.+||++|.|++++++.+.+..
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            5666   789999999999999999887654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.82  E-value=6.6e-09  Score=81.19  Aligned_cols=102  Identities=20%  Similarity=0.154  Sum_probs=70.0

Q ss_pred             EEeCCCcc-cccccchhhccCCcEEEEEEECCChhhHH--HHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHH
Q psy2300          74 IWDTAGQE-RYRTITTAYYRGAMGFILMYDVTNEESFT--SIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGK  150 (221)
Q Consensus        74 i~D~~g~~-~~~~~~~~~~~~~d~vi~v~d~~~~~s~~--~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  150 (221)
                      +-..||+- .........+..+|++++|+|+.++.+..  .+..|+        .+.|.++|+||+|+.....  .+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            33568875 33344556789999999999999987654  333332        4799999999999965211  12233


Q ss_pred             HHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         151 HLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       151 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++.+..+++++.+||+++.|++++++.+.+.+.+.
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            44445578999999999999999999988877643

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.78  E-value=7.5e-08  Score=78.90  Aligned_cols=157  Identities=14%  Similarity=0.159  Sum_probs=83.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccce-ee--eeEEEEEEeCCeEEEEEEEeCCCcccccccch-----hhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTV-GI--DFKVKTVFRHDKRVKLQIWDTAGQERYRTITT-----AYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~-----~~~   91 (221)
                      ....++|+|++|||||||+|.+.+...+....-.. +.  +........ .....+++||++|.........     ..+
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~-~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L  146 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKH-PNIPNVVFWDLPGIGSTNFPPDTYLEKMKF  146 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEEC-SSCTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccc-cccCCeeehHhhcccchHHHHHHHHHHcCC
Confidence            34579999999999999999999854222111111 11  111111111 1112578999998432111111     123


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC-------CCcccCHHH----HHHHH----HHh
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME-------DERVISFER----GKHLA----ESL  156 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~~----~~~~~----~~~  156 (221)
                      ...+..++ ++....+  ..-..+...+...   +.|+++|.||.|+.       .-......+    ...+.    ...
T Consensus       147 ~~~~~~~~-lS~G~~~--kqrv~la~aL~~~---~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~  220 (413)
T 1tq4_A          147 YEYDFFII-ISATRFK--KNDIDIAKAISMM---KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  220 (413)
T ss_dssp             GGCSEEEE-EESSCCC--HHHHHHHHHHHHT---TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             CccCCeEE-eCCCCcc--HHHHHHHHHHHhc---CCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            34455555 7765311  1111233333332   78999999999862       111112222    23332    122


Q ss_pred             C---CeEEEEecC--CCCCHHHHHHHHHHHHH
Q psy2300         157 G---VEFFETSAK--DNVNVKGVFERLVDIIC  183 (221)
Q Consensus       157 ~---~~~~~~Sa~--~~~gi~~l~~~i~~~~~  183 (221)
                      +   ..++.+|++  .+.|++++.+.+.+.+-
T Consensus       221 g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lp  252 (413)
T 1tq4_A          221 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  252 (413)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             CCCCCcEEEEecCcCCccCHHHHHHHHHHhCc
Confidence            2   367889994  55569999998877663

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.59  E-value=4.4e-08  Score=76.50  Aligned_cols=59  Identities=27%  Similarity=0.330  Sum_probs=36.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      ...++|+++|.||+|||||+|+|.+.... ...+.+++|.....+..+.   .+.+|||||.-
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~-~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIA-KTGDRPGITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCcee-ecCCCCCeeeeeEEEEeCC---CEEEEECcCcC
Confidence            45689999999999999999999987632 2334445444443333332   47899999953

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.56  E-value=2.5e-08  Score=77.05  Aligned_cols=57  Identities=19%  Similarity=0.292  Sum_probs=36.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER   82 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~   82 (221)
                      ++++++|.+|+|||||+|+|.+.... ...++++++.....+..+.   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~-~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRAS-SVGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhccccc-ccCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            69999999999999999999987642 2344555554443333332   578999999653

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.49  E-value=1.8e-07  Score=77.13  Aligned_cols=90  Identities=16%  Similarity=0.074  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCcccccc-----cch-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRT-----ITT-AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-----~~~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|......     +.. .....+|.+++|+|+.......   .....+...   -.+..||+||.|....  
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~---~~a~~f~~~---~~i~gVIlTKlD~~~~--  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAY---NQALAFKEA---TPIGSIIVTKLDGSAK--  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH---HHHHHHHHS---CTTEEEEEECCSSCSS--
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHH---HHHHHHHhh---CCCeEEEEECCCCccc--
Confidence            5688999999532211     111 1234579999999988654322   222333332   3566799999998543  


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                        ...+.......+.|+.+++.  |+++
T Consensus       255 --gG~~ls~~~~~g~PI~fig~--Ge~v  278 (443)
T 3dm5_A          255 --GGGALSAVAATGAPIKFIGT--GEKI  278 (443)
T ss_dssp             --HHHHHHHHHTTCCCEEEEEC--SSST
T ss_pred             --ccHHHHHHHHHCCCEEEEEc--CCCh
Confidence              22344455567888887775  6655

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.38  E-value=1.9e-07  Score=73.61  Aligned_cols=91  Identities=11%  Similarity=0.207  Sum_probs=62.3

Q ss_pred             cccchhhccCCcEEEEEEECCChhh-HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc--CHHHHHHHHHHhCCeE
Q psy2300          84 RTITTAYYRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI--SFERGKHLAESLGVEF  160 (221)
Q Consensus        84 ~~~~~~~~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~  160 (221)
                      ..+.+..+..+|.+++|+|+.+|.. ...+..++.....   .+.|.++|+||+|+.+....  ..+.........+.++
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v  153 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDV  153 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCE
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeE
Confidence            3445567889999999999997653 3344444444333   38999999999999664321  1233444445568899


Q ss_pred             EEEecCCCCCHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFER  177 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~  177 (221)
                      +.+|+.++.|++++++.
T Consensus       154 ~~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          154 YLTSSKDQDSLADIIPH  170 (307)
T ss_dssp             EECCHHHHTTCTTTGGG
T ss_pred             EEEecCCCCCHHHHHhh
Confidence            99999999887766543

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.37  E-value=1.5e-07  Score=72.71  Aligned_cols=94  Identities=15%  Similarity=0.126  Sum_probs=62.0

Q ss_pred             CCCcccc-cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH
Q psy2300          77 TAGQERY-RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES  155 (221)
Q Consensus        77 ~~g~~~~-~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~  155 (221)
                      .|||... .......+..+|++++|+|+.++.+..+..     +. ..  +.|.++|+||+|+.+...  .+....+.+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~-----l~-ll--~k~~iivlNK~DL~~~~~--~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG-----VD-FS--RKETIILLNKVDIADEKT--TKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT-----SC-CT--TSEEEEEEECGGGSCHHH--HHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH-----HH-hc--CCCcEEEEECccCCCHHH--HHHHHHHHHH
Confidence            3666422 234455789999999999999886654311     11 11  799999999999965321  1223344455


Q ss_pred             hCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         156 LGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       156 ~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      .+.++ .+||+++.|++++++++...
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHHh
Confidence            67888 99999999999998876543

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.35  E-value=7.1e-07  Score=73.69  Aligned_cols=84  Identities=14%  Similarity=0.069  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCcccccc-cch-----hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCC-c-EEEEEeCCCCCC
Q psy2300          69 RVKLQIWDTAGQERYRT-ITT-----AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNA-Q-VILVGNKCDMED  140 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~-~~~-----~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~-p-~ivv~nK~Dl~~  140 (221)
                      .+.+.|+||+|...... +..     ..+..+|.+++|+|+.....   .......+.    ... | ..+|+||.|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~----~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFK----EAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHH----TTSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHh----hcccCCeEEEEeCCCCcc
Confidence            35688999999643211 111     11236899999999876532   112222222    234 5 899999999743


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEE
Q psy2300         141 ERVISFERGKHLAESLGVEFFET  163 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~  163 (221)
                      ..    ..........+.++..+
T Consensus       253 ~~----g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          253 KG----GGALSAVAETKAPIKFI  271 (432)
T ss_dssp             TT----HHHHHHHHHSSCCEEEE
T ss_pred             ch----HHHHHHHHHHCCCEEEe
Confidence            21    22334555667666554

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.24  E-value=1.3e-06  Score=74.64  Aligned_cols=64  Identities=17%  Similarity=0.086  Sum_probs=40.5

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-ceeeeeEEEEE--Ee-CCeEEEEEEEeCCCcc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVS-TVGIDFKVKTV--FR-HDKRVKLQIWDTAGQE   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~--~~-~~~~~~~~i~D~~g~~   81 (221)
                      ..+.++|+|+|.||+|||||+|+|++....-.... +.+.+.....+  .. ......+.++||||..
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcC
Confidence            34678999999999999999999998763211111 11222222222  11 1123468899999954

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.24  E-value=7.3e-07  Score=73.42  Aligned_cols=91  Identities=12%  Similarity=0.052  Sum_probs=55.4

Q ss_pred             EEEEEEEeCCCccc--cc-----ccch-hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          69 RVKLQIWDTAGQER--YR-----TITT-AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        69 ~~~~~i~D~~g~~~--~~-----~~~~-~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      .+.+.++||+|...  ..     .+.. ......+.+++|+|+........   ....+...   -.+..||+||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~---~~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQA---SPIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHH---CSSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhcc---cCCcEEEEecccccc
Confidence            35678999999543  11     1111 01224689999999876533222   22333332   356889999999753


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300         141 ERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      .    ...+.......+.|+.+++.  |+++
T Consensus       253 ~----~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 K----GGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             C----HHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             c----chHHHHHHHHHCCCEEEEEC--CCCh
Confidence            2    23445556667899888876  7665

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.18  E-value=3.5e-06  Score=66.20  Aligned_cols=100  Identities=11%  Similarity=0.020  Sum_probs=60.3

Q ss_pred             EEEEEEeCCCccc--ccc-cch-----hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCC
Q psy2300          70 VKLQIWDTAGQER--YRT-ITT-----AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMED  140 (221)
Q Consensus        70 ~~~~i~D~~g~~~--~~~-~~~-----~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~  140 (221)
                      +.+.++||||...  ... +..     .....+|.+++|+|+.....   .......+..    ..+ ..+|+||.|...
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~----~~~i~gvVlnk~D~~~  253 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDLASKFNQ----ASKIGTIIITKMDGTA  253 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHHHHHHHH----TCTTEEEEEECGGGCT
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHHHHHHHh----hCCCCEEEEeCCCCCc
Confidence            5688999999765  211 111     12457899999999864322   2222222322    355 788999999743


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .    ...........+.++..++  .|++++++...-.+.+
T Consensus       254 ~----~g~~~~~~~~~~~pi~~i~--~Ge~v~dl~~f~~~~~  289 (297)
T 1j8m_F          254 K----GGGALSAVAATGATIKFIG--TGEKIDELEVFNPRRF  289 (297)
T ss_dssp             T----HHHHHHHHHTTTCCEEEEE--CSSSTTCEEECCHHHH
T ss_pred             c----hHHHHHHHHHHCcCEEEEe--CCCChhhcccCCHHHH
Confidence            2    2334556677788888776  5777766544333333

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.07  E-value=1.5e-05  Score=64.02  Aligned_cols=85  Identities=16%  Similarity=0.230  Sum_probs=56.7

Q ss_pred             hccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc-CHHHHHHHHHHhCCeEEEEecCC
Q psy2300          90 YYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI-SFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      .+.++|.+++|.+. +|. +...+..++...+..   +.|.+||+||+|+.+.... ..+.........|++++.+|+.+
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~~---~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCETL---QVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHHH---TCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHhc---CCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            36789999988765 454 334444455444443   7888999999999654221 01122233345678999999999


Q ss_pred             CCCHHHHHHHH
Q psy2300         168 NVNVKGVFERL  178 (221)
Q Consensus       168 ~~gi~~l~~~i  178 (221)
                      +.|++++...+
T Consensus       203 ~~gl~~L~~~~  213 (358)
T 2rcn_A          203 QDGLKPLEEAL  213 (358)
T ss_dssp             TBTHHHHHHHH
T ss_pred             CcCHHHHHHhc
Confidence            99999887653

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.04  E-value=8.5e-06  Score=70.24  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFT   47 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~   47 (221)
                      ..|+|+|++|||||||++.+.+...+
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~P   71 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVALP   71 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC--
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCCC
Confidence            35999999999999999999987543

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=98.01  E-value=4e-07  Score=76.15  Aligned_cols=113  Identities=12%  Similarity=0.065  Sum_probs=65.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc--ccccc--------hh
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER--YRTIT--------TA   89 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~--~~~~~--------~~   89 (221)
                      ..+.|+++|.+|+||||+.++|..... ....++.............+......+||..|.+.  ....+        ..
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~-~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~  116 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLN-FIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRK  116 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHh-ccCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            467899999999999999999876431 11112211110000000011112345789888632  22222        44


Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      ++...++.++|+|.++. ..+....|+..+...   +.+++++-..++
T Consensus       117 ~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~~~~---~~~vv~l~~~~~  160 (469)
T 1bif_A          117 FLSEEGGHVAVFDATNT-TRERRAMIFNFGEQN---GYKTFFVESICV  160 (469)
T ss_dssp             HHHTTCCSEEEEESCCC-SHHHHHHHHHHHHHH---TCEEEEEEECCC
T ss_pred             HHHhCCCCEEEEeCCCC-CHHHHHHHHHHHHhc---CCcEEEEEEECC
Confidence            56567888999999987 456666677766654   455555554444

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=97.88  E-value=2.3e-05  Score=62.30  Aligned_cols=94  Identities=11%  Similarity=0.012  Sum_probs=54.7

Q ss_pred             EEEEEeCCCccccccc-chh-----hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCccc
Q psy2300          71 KLQIWDTAGQERYRTI-TTA-----YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVI  144 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~-~~~-----~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~  144 (221)
                      .+.++|++|....... ...     ..-..|-.++++|+....   ++......+...   -..-++++||.|....   
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~---~~it~iilTKlD~~a~---  283 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEA---VKIDGIILTKLDADAR---  283 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHH---SCCCEEEEECGGGCSC---
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHh---cCCCEEEEeCcCCccc---
Confidence            3567899986432221 111     122478899999976543   233333333332   2345788999996322   


Q ss_pred             CHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         145 SFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                       .-.........+.++..++  +|++++++-.
T Consensus       284 -~G~~l~~~~~~~~pi~~i~--~Ge~v~dl~~  312 (328)
T 3e70_C          284 -GGAALSISYVIDAPILFVG--VGQGYDDLRP  312 (328)
T ss_dssp             -CHHHHHHHHHHTCCEEEEE--CSSSTTCEEE
T ss_pred             -hhHHHHHHHHHCCCEEEEe--CCCCcccccc
Confidence             1234556677788888887  6777766543

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.63  E-value=7.3e-05  Score=61.78  Aligned_cols=26  Identities=12%  Similarity=0.051  Sum_probs=22.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+..-|.|+|.+++|||+|+|+|++.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhh
Confidence            35778999999999999999999863

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.43  E-value=8e-05  Score=53.92  Aligned_cols=23  Identities=30%  Similarity=0.589  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++++|++|||||||++.+.+..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999988653

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.34  E-value=0.00071  Score=55.81  Aligned_cols=83  Identities=11%  Similarity=0.037  Sum_probs=45.5

Q ss_pred             EEEEEEEeCCCcccccc-cch-----hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCC
Q psy2300          69 RVKLQIWDTAGQERYRT-ITT-----AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDE  141 (221)
Q Consensus        69 ~~~~~i~D~~g~~~~~~-~~~-----~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~  141 (221)
                      .+.+.|+||||.-.... +..     ..+..++.+++|+|+......   ......+..    ..+ .-+|+||.|....
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~---~~~~~~f~~----~l~i~gvVlnK~D~~~~  255 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDA---ANTAKAFNE----ALPLTGVVLTKVDGDAR  255 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTH---HHHHHHHHH----HSCCCCEEEECTTSSSC
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHH---HHHHHHHhc----cCCCeEEEEecCCCCcc
Confidence            35688999999643321 111     124478899999998754322   222222322    234 4579999997432


Q ss_pred             cccCHHHHHHHHHHhCCeEEE
Q psy2300         142 RVISFERGKHLAESLGVEFFE  162 (221)
Q Consensus       142 ~~~~~~~~~~~~~~~~~~~~~  162 (221)
                      .    ..........+.++..
T Consensus       256 ~----g~~l~i~~~~~~Pi~~  272 (433)
T 2xxa_A          256 G----GAALSIRHITGKPIKF  272 (433)
T ss_dssp             C----THHHHHHHHHCCCEEE
T ss_pred             H----HHHHHHHHHHCCCeEE
Confidence            2    1233444555655433

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.29  E-value=0.00013  Score=52.67  Aligned_cols=22  Identities=18%  Similarity=0.389  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|++|||||||++.|...
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999999864

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.27  E-value=0.00052  Score=53.91  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|++|+|||||+|.+. ..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hh
Confidence            57999999999999999998 53

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.25  E-value=0.00016  Score=53.23  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|++|||||||++.+.+.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999998763

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.20  E-value=9.5e-05  Score=58.16  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|+|||||+|.|.+..
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHhcccc
Confidence            68999999999999999998754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.17  E-value=0.00021  Score=52.46  Aligned_cols=22  Identities=27%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -++|+|++|||||||++.|.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4899999999999999999875

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.16  E-value=0.00022  Score=51.78  Aligned_cols=22  Identities=27%  Similarity=0.353  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|+|++|||||||++.|.+.
T Consensus        11 ~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           11 ILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            5899999999999999999875

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.13  E-value=0.00024  Score=52.52  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|+|++|||||||++.+.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47999999999999999988754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.12  E-value=0.00023  Score=51.02  Aligned_cols=20  Identities=30%  Similarity=0.516  Sum_probs=17.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q psy2300          23 KLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~   42 (221)
                      -++++|++|||||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47999999999999999754

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.12  E-value=5.9e-05  Score=54.97  Aligned_cols=21  Identities=29%  Similarity=0.531  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|||||||+++|...
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999865

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=97.12  E-value=0.0039  Score=46.04  Aligned_cols=85  Identities=12%  Similarity=0.099  Sum_probs=55.5

Q ss_pred             EEEEEEeCCCc-ccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHH
Q psy2300          70 VKLQIWDTAGQ-ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFER  148 (221)
Q Consensus        70 ~~~~i~D~~g~-~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  148 (221)
                      +.+.++|+|+. ..  ......+..+|.+|+++..+ ..+...+...+..+....  +.++.+|+|+.|..... . ..+
T Consensus        68 yD~viiD~p~~~~~--~~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~-~-~~~  140 (209)
T 3cwq_A           68 YQNIVIDTQARPED--EDLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPSK-D-GDE  140 (209)
T ss_dssp             CSEEEEEEECCCSS--SHHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTSC-H-HHH
T ss_pred             CCEEEEeCCCCcCc--HHHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccch-H-HHH
Confidence            56889999876 32  23345677899999999864 456666667777776643  56789999999964311 1 234


Q ss_pred             HHHHHHHhCCeEE
Q psy2300         149 GKHLAESLGVEFF  161 (221)
Q Consensus       149 ~~~~~~~~~~~~~  161 (221)
                      ..+..+..+.+++
T Consensus       141 ~~~~l~~~g~~v~  153 (209)
T 3cwq_A          141 ARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHTTCCBC
T ss_pred             HHHHHHHcCCchh
Confidence            4455555665543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.08  E-value=0.00029  Score=52.64  Aligned_cols=23  Identities=30%  Similarity=0.509  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|||||||++.+.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999998754

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.06  E-value=0.0003  Score=52.04  Aligned_cols=26  Identities=15%  Similarity=0.093  Sum_probs=22.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-..|+|+|++|||||||++.|.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999988764

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.06  E-value=0.00033  Score=49.63  Aligned_cols=23  Identities=17%  Similarity=0.229  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999999999998765

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.06  E-value=0.00031  Score=52.53  Aligned_cols=23  Identities=17%  Similarity=0.276  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|+|++|||||||++.+.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            57899999999999999998754

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.00  E-value=0.0004  Score=51.37  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -|+|+|++|||||||++.|....
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            58899999999999999998764

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.00  E-value=0.00038  Score=52.62  Aligned_cols=23  Identities=26%  Similarity=0.236  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            37999999999999999988764

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.97  E-value=0.00052  Score=50.38  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      --|+|+|++|||||||++.|...
T Consensus        20 ~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           20 KTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECcCCCCHHHHHHHHHhh
Confidence            35789999999999999999864

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.95  E-value=0.00047  Score=49.17  Aligned_cols=23  Identities=17%  Similarity=0.364  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|++|||||||.+.|...
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.95  E-value=0.00043  Score=51.92  Aligned_cols=23  Identities=30%  Similarity=0.390  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999988754

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.94  E-value=0.00047  Score=50.02  Aligned_cols=21  Identities=33%  Similarity=0.434  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .++|+|++|||||||++.+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.92  E-value=0.00049  Score=50.50  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..|+|+|++||||||+++.|.+..
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.91  E-value=0.00048  Score=50.28  Aligned_cols=22  Identities=23%  Similarity=0.552  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +++++|++|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            4799999999999999998764

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.91  E-value=0.00055  Score=54.94  Aligned_cols=23  Identities=30%  Similarity=0.335  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|+|||||+|.|.+..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            58999999999999999999865

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.90  E-value=0.00054  Score=51.96  Aligned_cols=23  Identities=26%  Similarity=0.345  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998764

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.89  E-value=0.00057  Score=50.33  Aligned_cols=23  Identities=26%  Similarity=0.442  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-|+|+|++|||||||++.|...
T Consensus        13 ~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           13 PPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999999764

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.88  E-value=0.00057  Score=50.90  Aligned_cols=23  Identities=22%  Similarity=0.260  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37899999999999999998764

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.88  E-value=0.00056  Score=50.20  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.|+|+|++|||||||++.|.+.
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999988653

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.88  E-value=0.00063  Score=50.20  Aligned_cols=24  Identities=29%  Similarity=0.371  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|+|+.|||||||++.|.+.
T Consensus         6 ~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            6 PFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999988764

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.88  E-value=0.00056  Score=52.59  Aligned_cols=23  Identities=35%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37999999999999999998764

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.87  E-value=0.00063  Score=48.31  Aligned_cols=20  Identities=30%  Similarity=0.355  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHH
Q psy2300          22 FKLLIIGNSSVGKTSFLFRY   41 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l   41 (221)
                      ..|+|+|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            36899999999999999999

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.87  E-value=0.00056  Score=52.95  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+-.
T Consensus        37 ~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           37 TAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHHcCC
Confidence            7999999999999999998764

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.87  E-value=0.00065  Score=51.56  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~   42 (221)
                      -.|+|+|++|||||||++.|.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999998

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.86  E-value=0.00064  Score=51.46  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998764

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.85  E-value=0.0006  Score=52.55  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+-.
T Consensus        40 ~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           40 VAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCC
Confidence            7999999999999999998764

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.84  E-value=0.00071  Score=48.03  Aligned_cols=22  Identities=9%  Similarity=0.221  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|.|++||||||+.+.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998754

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.84  E-value=0.0008  Score=48.12  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|++||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999986

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.84  E-value=0.00061  Score=52.22  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998764

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.83  E-value=0.00072  Score=50.88  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998764

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.83  E-value=0.00071  Score=51.37  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.82  E-value=0.00072  Score=51.52  Aligned_cols=23  Identities=22%  Similarity=0.186  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998764

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.82  E-value=0.00067  Score=52.18  Aligned_cols=23  Identities=30%  Similarity=0.387  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            37999999999999999988764

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.81  E-value=0.00057  Score=49.18  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -.++++|++|+|||||++.+.+..
T Consensus        39 ~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           39 KGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999887643

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.81  E-value=0.00068  Score=51.40  Aligned_cols=23  Identities=30%  Similarity=0.319  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998764

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.79  E-value=0.00072  Score=51.79  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998764

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.78  E-value=0.00083  Score=51.24  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47999999999999999988764

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.78  E-value=0.00082  Score=49.78  Aligned_cols=22  Identities=14%  Similarity=0.335  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|+|+|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            1 MNIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998854

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.78  E-value=0.00072  Score=51.96  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      =.++|+|++|||||||++.+.+.
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            35899999999999999998764

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.77  E-value=0.001  Score=47.45  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|+|++||||||+++.|..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998865

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.77  E-value=0.00077  Score=51.43  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|+.|||||||++.+.+.
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3789999999999999999985

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.76  E-value=0.00081  Score=49.34  Aligned_cols=22  Identities=18%  Similarity=0.359  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .+|+|+|++||||||+.+.|..
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3699999999999999999876

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.76  E-value=0.00062  Score=50.48  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++++|+.|||||||++.+.+.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999875

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.76  E-value=0.00084  Score=51.55  Aligned_cols=23  Identities=13%  Similarity=0.150  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl~   70 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRFY   70 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            47999999999999999998754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.76  E-value=0.00085  Score=52.07  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47999999999999999998764

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.76  E-value=0.0008  Score=52.84  Aligned_cols=22  Identities=23%  Similarity=0.217  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|++|+|||||++.|.+-
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhh
Confidence            6899999999999999988764

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.75  E-value=0.00079  Score=49.36  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|.+||||||+.+.|...
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999988653

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.75  E-value=0.00088  Score=49.64  Aligned_cols=22  Identities=23%  Similarity=0.366  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|+|+|++||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            1 MNLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999864

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.75  E-value=0.00099  Score=48.96  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +.|+|+|++||||||+.+.|..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999976

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.75  E-value=0.0009  Score=49.02  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|+|++||||||+.+.|..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            4799999999999999998874

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.74  E-value=0.00092  Score=51.52  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|+.|||||||++.+.+.
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4799999999999999999986

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.73  E-value=0.00091  Score=51.67  Aligned_cols=23  Identities=13%  Similarity=0.161  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37999999999999999998764

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.72  E-value=0.001  Score=50.64  Aligned_cols=27  Identities=22%  Similarity=0.244  Sum_probs=21.5

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +....+.|+|.|.+||||||+.+.|..
T Consensus        18 ~~~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           18 NGGEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             ---CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            334567899999999999999998865

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.72  E-value=0.0012  Score=48.40  Aligned_cols=27  Identities=19%  Similarity=0.364  Sum_probs=22.6

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .......|+|+|.+||||||+.+.|..
T Consensus        16 ~~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           16 PRGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            334567899999999999999998865

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.71  E-value=0.00096  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.249  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|++||||||+.+.|..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998865

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.71  E-value=0.00088  Score=51.22  Aligned_cols=23  Identities=22%  Similarity=0.323  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.70  E-value=0.00091  Score=49.03  Aligned_cols=25  Identities=16%  Similarity=0.155  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-.|+|+|++|||||||.+.|...
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3457899999999999999988754

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.70  E-value=0.00096  Score=47.73  Aligned_cols=22  Identities=23%  Similarity=0.338  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|.|++||||||+.+.|...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999998764

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.69  E-value=0.00091  Score=51.52  Aligned_cols=23  Identities=35%  Similarity=0.410  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999988764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.69  E-value=0.0011  Score=52.03  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|++|||||||++.+.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            57999999999999999998765

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.68  E-value=0.001  Score=47.82  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|+|++|+|||||++++...
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            46899999999999999999864

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.68  E-value=0.0011  Score=48.49  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|+|.+||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999998875

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.68  E-value=0.00091  Score=49.86  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|+|++|||||||++.+++..
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47999999999999999998743

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.66  E-value=0.00059  Score=51.25  Aligned_cols=22  Identities=23%  Similarity=0.294  Sum_probs=14.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHh-cC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYA-DD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~-~~   44 (221)
                      .++|+|++|||||||++.|. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58999999999999999998 54

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.66  E-value=0.00096  Score=52.62  Aligned_cols=27  Identities=19%  Similarity=0.125  Sum_probs=22.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .....|+|+|++|||||||++.+.+..
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll  114 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALL  114 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhc
Confidence            445789999999999999999887643

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.66  E-value=0.0013  Score=50.56  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998764

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.65  E-value=0.0027  Score=43.84  Aligned_cols=23  Identities=4%  Similarity=0.118  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|++.|++|+|||++++.+...
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCCT
T ss_pred             CcEEEECCCCccHHHHHHHHHHh
Confidence            45999999999999999887654

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.63  E-value=0.0013  Score=47.52  Aligned_cols=21  Identities=24%  Similarity=0.403  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|.+||||||+.+.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.62  E-value=0.0014  Score=47.17  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            5 QAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.61  E-value=0.0013  Score=48.66  Aligned_cols=22  Identities=27%  Similarity=0.401  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +.|+|+|+|||||+|...+|..
T Consensus         1 M~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            1 MILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998864

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.61  E-value=0.0016  Score=47.82  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=21.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|+|++|||||||++.|...
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3467999999999999999998875

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.59  E-value=0.002  Score=50.95  Aligned_cols=26  Identities=19%  Similarity=0.148  Sum_probs=22.2

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ....+-|+|+|++|||||||++.|..
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34568899999999999999988754

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.59  E-value=0.0014  Score=47.34  Aligned_cols=22  Identities=23%  Similarity=0.191  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|.|++||||||+.+.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998864

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.58  E-value=0.0016  Score=47.18  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999999865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.58  E-value=0.0012  Score=51.12  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++++|++|+|||||++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999874

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.58  E-value=0.0014  Score=46.99  Aligned_cols=23  Identities=30%  Similarity=0.457  Sum_probs=20.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|+|.+|+||||+.+.|..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            34689999999999999999874

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.57  E-value=0.0013  Score=48.66  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|+|.|.+||||||+.+.|..
T Consensus         1 m~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            1 MRIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998865

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.57  E-value=0.00061  Score=48.86  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|+|++|||||||++.+.+.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998865

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.56  E-value=0.0015  Score=47.03  Aligned_cols=22  Identities=32%  Similarity=0.345  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+++|++||||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999864

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.55  E-value=0.0015  Score=48.57  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|+|.+||||||+.+.|..
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998865

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.54  E-value=0.0011  Score=53.44  Aligned_cols=25  Identities=24%  Similarity=0.295  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-+++|+|++|||||||++.|.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999988754

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.54  E-value=0.0015  Score=52.41  Aligned_cols=22  Identities=45%  Similarity=0.539  Sum_probs=20.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+-.
T Consensus        33 ~~llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           33 LFIIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            7999999999999999998865

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.54  E-value=0.0014  Score=51.15  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47999999999999999988764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.54  E-value=0.0018  Score=49.09  Aligned_cols=24  Identities=13%  Similarity=0.169  Sum_probs=21.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ....|+|+|++||||||+.+.|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999864

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.53  E-value=0.0016  Score=49.31  Aligned_cols=25  Identities=16%  Similarity=0.222  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|+|+.|||||||++.|.+.
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4467999999999999999988763

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.52  E-value=0.0046  Score=45.31  Aligned_cols=21  Identities=38%  Similarity=0.491  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++|.|++|+|||+|++.+...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999988754

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.52  E-value=0.00092  Score=52.54  Aligned_cols=23  Identities=26%  Similarity=0.300  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCchHHHHHHHHHcCC
Confidence            48999999999999999888653

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.51  E-value=0.00094  Score=46.70  Aligned_cols=23  Identities=17%  Similarity=0.419  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|++|+|||+|++.+.+..
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58899999999999999988754

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.50  E-value=0.002  Score=46.58  Aligned_cols=24  Identities=33%  Similarity=0.415  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|+|++||||||+.+.|...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999998765

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.50  E-value=0.002  Score=47.16  Aligned_cols=24  Identities=13%  Similarity=0.272  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ....|+|.|.+||||||+.+.|..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998864

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.49  E-value=0.002  Score=46.64  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5699999999999999998864

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.48  E-value=0.002  Score=47.01  Aligned_cols=25  Identities=20%  Similarity=0.082  Sum_probs=22.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|+|.+||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            4578999999999999999998865

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.48  E-value=0.0016  Score=49.58  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|++|+|||||++.+.+..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999998653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.48  E-value=0.002  Score=47.31  Aligned_cols=22  Identities=23%  Similarity=0.172  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|.|.+||||||+.+.|..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.47  E-value=0.0016  Score=52.73  Aligned_cols=22  Identities=27%  Similarity=0.424  Sum_probs=20.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|++|||||||++.+.+-.
T Consensus        32 ~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           32 VVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHcCC
Confidence            7899999999999999998765

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.46  E-value=0.0016  Score=46.51  Aligned_cols=21  Identities=24%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +|+|+|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.46  E-value=0.0016  Score=52.33  Aligned_cols=22  Identities=23%  Similarity=0.224  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+-.
T Consensus        57 ~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           57 YGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHhcCC
Confidence            7999999999999999988764

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.45  E-value=0.0016  Score=51.20  Aligned_cols=91  Identities=14%  Similarity=0.019  Sum_probs=48.8

Q ss_pred             EEEEEeCCCcccccc------------cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          71 KLQIWDTAGQERYRT------------ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~------------~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      .+.+.|++|......            +.+......+.+++++|+......   ...+..+...   ....++++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~---~~~~~~~~~~---~~~t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNG---LEQAKKFHEA---VGLTGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHH---HHHHHHHHHH---HCCSEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHH---HHHHHHHHHH---cCCcEEEEECCcc
Confidence            356889998532111            011223457778889998755322   2222333222   1346788999986


Q ss_pred             CCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300         139 EDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      ... .   -.+.......+.++.++.  .|+++++
T Consensus       260 ~a~-g---g~~l~i~~~~~~pi~~ig--~Ge~~~d  288 (304)
T 1rj9_A          260 TAK-G---GVLIPIVRTLKVPIKFVG--VGEGPDD  288 (304)
T ss_dssp             SCC-C---TTHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             ccc-c---cHHHHHHHHHCCCeEEEe--CCCChhh
Confidence            422 1   123344556788877775  3555544

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.45  E-value=0.002  Score=51.73  Aligned_cols=22  Identities=32%  Similarity=0.330  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        44 ~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           44 VGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            7899999999999999998764

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.45  E-value=0.0016  Score=52.30  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|++|||||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           32 VALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEcCCCchHHHHHHHHHCCC
Confidence            7899999999999999998764

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.45  E-value=0.002  Score=45.60  Aligned_cols=21  Identities=19%  Similarity=0.284  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998875

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.45  E-value=0.007  Score=48.16  Aligned_cols=21  Identities=24%  Similarity=0.426  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++|.|++|+||||+++.+.+.
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988773

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.45  E-value=0.0015  Score=52.40  Aligned_cols=22  Identities=27%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|+|++|||||||++.+++.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.45  E-value=0.003  Score=46.31  Aligned_cols=25  Identities=28%  Similarity=0.185  Sum_probs=21.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .....|+|+|++|||||||++.|..
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457799999999999999998865

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.44  E-value=0.0016  Score=51.05  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.++++|++||||||+++.+.+
T Consensus       101 ~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A          101 AVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.44  E-value=0.0017  Score=52.25  Aligned_cols=22  Identities=27%  Similarity=0.520  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           32 MALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCchHHHHHHHHhcCC
Confidence            7899999999999999998764

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.43  E-value=0.0024  Score=49.83  Aligned_cols=25  Identities=12%  Similarity=0.157  Sum_probs=21.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .....|+|+|++|||||||++.|..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999987754

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.41  E-value=0.0023  Score=49.84  Aligned_cols=24  Identities=25%  Similarity=0.211  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...-|+|.|++||||||+.++|..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999999874

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.40  E-value=0.002  Score=48.19  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998864

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.39  E-value=0.0018  Score=52.29  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=20.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+-.
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCcHHHHHHHHHHcCC
Confidence            7899999999999999998765

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.39  E-value=0.0021  Score=47.97  Aligned_cols=21  Identities=29%  Similarity=0.314  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998864

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.39  E-value=0.0019  Score=52.17  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            37899999999999999998764

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.37  E-value=0.0031  Score=45.51  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|+|.+||||||+.+.|...
T Consensus        13 ~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           13 GIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            467899999999999999988654

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.37  E-value=0.0022  Score=47.21  Aligned_cols=23  Identities=13%  Similarity=0.176  Sum_probs=20.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.36  E-value=0.0023  Score=45.78  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988764

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.35  E-value=0.0019  Score=51.37  Aligned_cols=23  Identities=17%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|||||||++.+.+..
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999998764

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.35  E-value=0.0024  Score=46.61  Aligned_cols=23  Identities=17%  Similarity=0.221  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|.|.+||||||+.+.|...
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHT
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHH
Confidence            56999999999999999999865

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.35  E-value=0.0025  Score=45.56  Aligned_cols=23  Identities=17%  Similarity=0.352  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|+|.+|+|||||+.++...
T Consensus         5 ~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            5 NVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999998764

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.33  E-value=0.0026  Score=49.99  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=21.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|+|++|||||||++.|.+.
T Consensus        79 ~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           79 IPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4467999999999999999988764

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.33  E-value=0.0021  Score=51.94  Aligned_cols=23  Identities=22%  Similarity=0.297  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      =.|+|+|++|||||||++.+.+.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            35899999999999999998864

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.32  E-value=0.0032  Score=45.42  Aligned_cols=22  Identities=14%  Similarity=0.228  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.32  E-value=0.0019  Score=51.94  Aligned_cols=23  Identities=17%  Similarity=0.427  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|||||||++.+.+..
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            68999999999999999998754

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.30  E-value=0.0021  Score=47.87  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|++||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.30  E-value=0.0095  Score=49.18  Aligned_cols=24  Identities=13%  Similarity=0.098  Sum_probs=20.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~   42 (221)
                      .+..-|.|+|..++|||+|+|.|+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHH
T ss_pred             CceEEEEEECCCCCchhHHHHHHH
Confidence            467888899999999999999654

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.29  E-value=0.0026  Score=46.07  Aligned_cols=22  Identities=14%  Similarity=0.271  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.28  E-value=0.0026  Score=45.93  Aligned_cols=21  Identities=19%  Similarity=0.183  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998875

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.28  E-value=0.0035  Score=46.68  Aligned_cols=21  Identities=14%  Similarity=0.346  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -|+|+|+|||||+|...+|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367899999999999988865

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.28  E-value=0.0023  Score=49.38  Aligned_cols=22  Identities=32%  Similarity=0.545  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|+|++|+|||||++.+.+..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCcChHHHHHHHHHHHc
Confidence            8999999999999999998653

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.28  E-value=0.0023  Score=47.99  Aligned_cols=26  Identities=35%  Similarity=0.530  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-.-|+|.|+.|||||||++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34567899999999999999998765

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.28  E-value=0.0027  Score=48.38  Aligned_cols=21  Identities=24%  Similarity=0.207  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~   42 (221)
                      ..|+|+|++||||||+++.|.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999987

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.27  E-value=0.0024  Score=48.72  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|+|++|||||||.+.|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999864

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.27  E-value=0.0026  Score=47.22  Aligned_cols=22  Identities=23%  Similarity=0.286  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998864

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.27  E-value=0.0025  Score=45.75  Aligned_cols=21  Identities=19%  Similarity=0.085  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.+|+|+.|+|||||+.++..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999999865

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.26  E-value=0.0015  Score=52.23  Aligned_cols=23  Identities=35%  Similarity=0.413  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            37899999999999999998764

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.26  E-value=0.0023  Score=50.88  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999998864

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.26  E-value=0.0027  Score=46.13  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|.+||||||+.+.|...
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~~   35 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVEK   35 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988653

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.24  E-value=0.00096  Score=49.22  Aligned_cols=22  Identities=18%  Similarity=0.317  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|+|.+||||||+++.|...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4899999999999999998753

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.24  E-value=0.0022  Score=48.86  Aligned_cols=26  Identities=23%  Similarity=0.262  Sum_probs=22.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .....|+++|++||||||+.+.|...
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34578999999999999999998653

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.23  E-value=0.0024  Score=51.89  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|+.|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            3799999999999999998874

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.23  E-value=0.0027  Score=48.62  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4699999999999999999875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.23  E-value=0.0028  Score=46.61  Aligned_cols=23  Identities=13%  Similarity=0.018  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999998875

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.23  E-value=0.0029  Score=44.89  Aligned_cols=21  Identities=19%  Similarity=0.327  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.23  E-value=0.0026  Score=47.30  Aligned_cols=22  Identities=23%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -++|+|++|+|||||+..+...
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999998854

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.21  E-value=0.0025  Score=52.35  Aligned_cols=23  Identities=22%  Similarity=0.424  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .|+|+|++|||||||++.+++..
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhhc
Confidence            58999999999999999988753

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.20  E-value=0.0029  Score=45.30  Aligned_cols=23  Identities=22%  Similarity=0.315  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|.+||||||+.+.|...
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46889999999999999988763

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.19  E-value=0.0027  Score=51.05  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .-.|+++|++|||||||+..+.+
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHh
Confidence            34689999999999999999875

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.19  E-value=0.0026  Score=53.58  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|++|||||||++.+++..
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999998754

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.19  E-value=0.0036  Score=46.34  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .+.|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999876

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.17  E-value=0.0031  Score=45.32  Aligned_cols=21  Identities=29%  Similarity=0.428  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|+|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.14  E-value=0.0037  Score=46.92  Aligned_cols=23  Identities=17%  Similarity=0.296  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|+|.+||||||+.+.|..
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999998864

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.13  E-value=0.0031  Score=48.00  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.|+++|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35999999999999999998764

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=96.12  E-value=0.0054  Score=45.82  Aligned_cols=27  Identities=22%  Similarity=0.032  Sum_probs=22.2

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .+.+-|++.|.++.|||+|++++.+..
T Consensus        27 ~nkilvl~~~~~~~~~~~~~~~lf~~~   53 (233)
T 3uc9_A           27 QNKILVLSDHPHNFLKTQFLQDLFHCS   53 (233)
T ss_dssp             CCEEEEEEEGGGHHHHHHHHHHHHCCC
T ss_pred             CCceEEEecCcccccHHHHHHHHhccc
Confidence            356666667999999999999999874

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.11  E-value=0.0015  Score=52.40  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            37899999999999999998764

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.08  E-value=0.0025  Score=48.76  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ....|+|.|.+||||||+++.|...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999988754

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.07  E-value=0.0043  Score=43.89  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=19.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|.|.+||||||+.+.|..
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998864

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.07  E-value=0.0033  Score=52.53  Aligned_cols=94  Identities=12%  Similarity=0.060  Sum_probs=50.3

Q ss_pred             EEEEEEeCCCcccccc-cc------hhhc-----cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          70 VKLQIWDTAGQERYRT-IT------TAYY-----RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-~~------~~~~-----~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      +.+.++||.|...... +.      ....     ...+-++||+|+.-...   .......+...   -..-.+|+||.|
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~---al~~ak~f~~~---~~itgvIlTKLD  449 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQN---AVSQAKLFHEA---VGLTGITLTKLD  449 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHH---HHHHHHHHHHH---TCCSEEEEECGG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHH---HHHHHHHHHhh---cCCCEEEEEcCC
Confidence            3477899999632211 10      0111     12567889999765422   11222333322   123457899999


Q ss_pred             CCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300         138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       138 l~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      -..  ..  -.+..+....++++.++  -+|++++++.
T Consensus       450 ~ta--kg--G~~lsi~~~~~~PI~fi--g~Ge~vdDL~  481 (503)
T 2yhs_A          450 GTA--KG--GVIFSVADQFGIPIRYI--GVGERIEDLR  481 (503)
T ss_dssp             GCS--CC--THHHHHHHHHCCCEEEE--ECSSSGGGEE
T ss_pred             Ccc--cc--cHHHHHHHHHCCCEEEE--ecCCChhhcc
Confidence            522  11  23455566778887764  4466776543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.07  E-value=0.0029  Score=45.19  Aligned_cols=24  Identities=25%  Similarity=0.360  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++|.|++|+|||+|++.+...
T Consensus        43 ~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           43 KNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            346799999999999999988754

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.05  E-value=0.0022  Score=45.93  Aligned_cols=23  Identities=26%  Similarity=0.206  Sum_probs=16.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|.|.+||||||+.+.|...
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999998643

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.04  E-value=0.0037  Score=50.04  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++++|++|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999999875

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.04  E-value=0.0033  Score=48.93  Aligned_cols=23  Identities=22%  Similarity=0.372  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|+|++|+|||||+..+.+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            47999999999999999987653

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=96.03  E-value=0.0043  Score=43.28  Aligned_cols=19  Identities=42%  Similarity=0.511  Sum_probs=17.3

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q psy2300          24 LLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~   42 (221)
                      .+|+|+.|+|||||+.++.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            4899999999999999975

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.03  E-value=0.0027  Score=50.18  Aligned_cols=24  Identities=25%  Similarity=0.324  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -.++|+|+.|||||||++.+.+..
T Consensus         5 ~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            5 AVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cEEEEEecCCCCHHHHHHHHHhhc
Confidence            357899999999999999999653

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.01  E-value=0.0042  Score=46.33  Aligned_cols=24  Identities=13%  Similarity=0.274  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++|.|++|+|||+|++.+...
T Consensus        52 ~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           52 VQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988754

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.01  E-value=0.0035  Score=47.77  Aligned_cols=22  Identities=23%  Similarity=0.209  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+|+|++||||||+.+.|..
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998865

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.00  E-value=0.004  Score=45.47  Aligned_cols=23  Identities=35%  Similarity=0.418  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|+..+...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57899999999999999988764

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.0031  Score=52.41  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+++-.
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCcc
Confidence            58999999999999999988753

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.99  E-value=0.004  Score=46.69  Aligned_cols=22  Identities=23%  Similarity=0.199  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -++|+|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4799999999999999999874

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.99  E-value=0.0041  Score=45.90  Aligned_cols=24  Identities=17%  Similarity=0.338  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|+|.+||||||+.+.|...
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            456899999999999999988653

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.98  E-value=0.0041  Score=45.87  Aligned_cols=21  Identities=19%  Similarity=0.224  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            479999999999999999987

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.97  E-value=0.0047  Score=46.50  Aligned_cols=23  Identities=22%  Similarity=0.225  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .+.|+|.|++||||||+.+.|..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999998864

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.96  E-value=0.0061  Score=44.45  Aligned_cols=26  Identities=12%  Similarity=0.144  Sum_probs=22.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...+.|+|+|.+||||||+.+.|...
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHh
Confidence            35688999999999999999988754

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=95.94  E-value=0.0052  Score=47.62  Aligned_cols=24  Identities=29%  Similarity=0.358  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..+.|+|.|.+||||||+.+.|..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998873

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.93  E-value=0.0045  Score=46.48  Aligned_cols=25  Identities=16%  Similarity=0.118  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.-|+|.|++||||||+++.|...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3467899999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.89  E-value=0.0062  Score=51.68  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999998754

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.88  E-value=0.023  Score=44.85  Aligned_cols=24  Identities=21%  Similarity=0.325  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|.|++|+|||+|++.+...
T Consensus        55 ~~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           55 LDHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            346899999999999999999654

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=95.85  E-value=0.0057  Score=42.29  Aligned_cols=26  Identities=8%  Similarity=0.013  Sum_probs=21.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ....|++.|++|+|||++.+.+....
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            33568999999999999999987654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.83  E-value=0.0061  Score=51.69  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            36999999999999999998864

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.78  E-value=0.0052  Score=49.69  Aligned_cols=23  Identities=22%  Similarity=0.177  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .-.++++|++|+|||||++.+.+
T Consensus       169 ~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          169 KRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHh
Confidence            34689999999999999999885

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.77  E-value=0.0052  Score=47.73  Aligned_cols=24  Identities=29%  Similarity=0.310  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++|.|++|+|||+|++.+...
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            357899999999999999999864

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.76  E-value=0.0053  Score=51.22  Aligned_cols=22  Identities=14%  Similarity=0.341  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      =.++|+|+.|||||||++.+.+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHhc
Confidence            3579999999999999998875

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.76  E-value=0.0057  Score=47.62  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..|+|+|.+||||||+.++|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999876

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.75  E-value=0.0058  Score=46.40  Aligned_cols=24  Identities=25%  Similarity=0.268  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.|+|.|++|+|||+|++.+...
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            345899999999999999998763

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.74  E-value=0.0055  Score=47.25  Aligned_cols=24  Identities=25%  Similarity=0.275  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++|.|++|+|||+|++.+...
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            446999999999999999999764

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.72  E-value=0.0059  Score=50.44  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++|+|++|||||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            68999999999999999998864

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=95.72  E-value=0.0059  Score=45.29  Aligned_cols=22  Identities=36%  Similarity=0.386  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -++|.|++|+|||+|++.+...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988653

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.72  E-value=0.0057  Score=47.82  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.|+|.|++|+|||+|++.+....
T Consensus        49 ~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           49 SKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             CSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CceEEEECCCCcCHHHHHHHHHHHh
Confidence            3468999999999999999998643

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.69  E-value=0.0076  Score=51.85  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47999999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.69  E-value=0.0064  Score=47.37  Aligned_cols=25  Identities=20%  Similarity=-0.007  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...-+++.|+||+|||+|++.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3456788899999999999998764

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.67  E-value=0.0061  Score=52.22  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            58999999999999999988754

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.66  E-value=0.0054  Score=45.15  Aligned_cols=22  Identities=23%  Similarity=0.368  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+++.|+||+|||+++.++...
T Consensus        60 ~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999998887653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.61  E-value=0.008  Score=45.14  Aligned_cols=25  Identities=24%  Similarity=0.199  Sum_probs=21.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .....|+|+|.+||||||+.+.|..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456899999999999999998875

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.61  E-value=0.0081  Score=45.06  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=20.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..++++|+|+|||||||+..+|..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            467899999999999999998764

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.59  E-value=0.0071  Score=48.71  Aligned_cols=19  Identities=21%  Similarity=0.377  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q psy2300          24 LLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~   42 (221)
                      .+|+|+.|+|||||++.++
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5699999999999999986

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.58  E-value=0.0093  Score=51.32  Aligned_cols=23  Identities=26%  Similarity=0.273  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            47999999999999999998764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.58  E-value=0.0068  Score=46.78  Aligned_cols=21  Identities=14%  Similarity=0.245  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -++|+|++|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.56  E-value=0.0089  Score=46.61  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ....++|.|++|+|||+|++.+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999986654

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.54  E-value=0.0093  Score=51.11  Aligned_cols=23  Identities=17%  Similarity=0.312  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999988754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.52  E-value=0.0074  Score=49.60  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .--|++.|+||+|||+|++++.+.
T Consensus       206 prGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          206 PRGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CCEEEEESCTTTTHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            346999999999999999999864

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.51  E-value=0.0081  Score=46.94  Aligned_cols=90  Identities=12%  Similarity=0.086  Sum_probs=49.7

Q ss_pred             EEEEEEeCCCcccccc--cc--hhhcc--CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc
Q psy2300          70 VKLQIWDTAGQERYRT--IT--TAYYR--GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV  143 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~--~~--~~~~~--~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~  143 (221)
                      +.+.|+||+|......  +.  ...+.  ..+.+++|+|++..  ...+..+...+..    -...-+|+||.|..... 
T Consensus       183 ~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~----l~~~giVltk~D~~~~~-  255 (296)
T 2px0_A          183 YDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSS----VPVNQYIFTKIDETTSL-  255 (296)
T ss_dssp             SSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSS----SCCCEEEEECTTTCSCC-
T ss_pred             CCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhc----CCCCEEEEeCCCcccch-
Confidence            4688999999664322  11  11222  36778999987643  2333333332221    12345667999974321 


Q ss_pred             cCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300         144 ISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus       144 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                         ..........++++..+.  .|+++
T Consensus       256 ---g~~~~~~~~~~~pi~~i~--~ge~v  278 (296)
T 2px0_A          256 ---GSVFNILAESKIGVGFMT--NGQNV  278 (296)
T ss_dssp             ---HHHHHHHHTCSCCCSEEC--CSSCT
T ss_pred             ---hHHHHHHHHHCcCEEEEE--CCCCC
Confidence               245556667777765554  34554

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.51  E-value=0.0076  Score=49.61  Aligned_cols=25  Identities=24%  Similarity=0.159  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.-.|++.|+||+|||+|++++.+.
T Consensus       214 ~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          214 APKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCeeEEECcCCCCHHHHHHHHHHH
Confidence            3457999999999999999999864

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.51  E-value=0.0075  Score=47.54  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|++.+...
T Consensus        38 ~~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           38 NPIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SSEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998764

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.49  E-value=0.011  Score=50.14  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999999864

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.46  E-value=0.011  Score=46.04  Aligned_cols=25  Identities=28%  Similarity=0.375  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.++|+|++|+|||++++.+....
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHH
Confidence            3579999999999999999887643

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.44  E-value=0.0086  Score=49.12  Aligned_cols=24  Identities=17%  Similarity=0.236  Sum_probs=20.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-|+|+|.+||||||+.++|...
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            456889999999999999998764

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=95.43  E-value=0.011  Score=48.20  Aligned_cols=30  Identities=20%  Similarity=0.417  Sum_probs=22.6

Q ss_pred             hhhcCCCeeeEEEEEcCCCCCHHHHHHHHh
Q psy2300          13 AADQNFDYMFKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        13 ~~~~~~~~~~~i~vvG~~~~GKSsli~~l~   42 (221)
                      .........+|++++|...|||||+++++.
T Consensus        32 ~~~~~~~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           32 KDKQVYRATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             ----CCTTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             HHHHHhhccceEEEecCCCCchhhHHHHHH
Confidence            334445678999999999999999998753

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.43  E-value=0.012  Score=49.99  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999998864

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.43  E-value=0.012  Score=50.70  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|+|||||++.+.+..
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~  406 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVE  406 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            37999999999999999998864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.43  E-value=0.0084  Score=49.39  Aligned_cols=25  Identities=24%  Similarity=0.170  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.--|++.|+||+|||+|++++.+.
T Consensus       214 ~prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          214 PPKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            3457999999999999999999864

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.42  E-value=0.0088  Score=46.94  Aligned_cols=93  Identities=15%  Similarity=0.129  Sum_probs=51.7

Q ss_pred             EEEEEEeCCCcccccc-c-------chh----hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          70 VKLQIWDTAGQERYRT-I-------TTA----YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-~-------~~~----~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                      +.+.++|+||...... +       ...    .....+.+++|+|+....  ..+.. ...+...   -...-+|+||.|
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~~-a~~~~~~---~~i~gvVlTk~D  260 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLVQ-AKIFKEA---VNVTGIILTKLD  260 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHHH-HHHHHHH---SCCCEEEEECGG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHHH-HHHHHhc---CCCCEEEEeCCC
Confidence            3578999999532111 0       001    113478899999986331  22222 2223222   234566789999


Q ss_pred             CCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300         138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       138 l~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ....-    -.+.......+.|+.++..  |+.++++
T Consensus       261 ~~~~g----G~~l~~~~~~~~Pi~~i~~--Ge~~~dl  291 (306)
T 1vma_A          261 GTAKG----GITLAIARELGIPIKFIGV--GEKAEDL  291 (306)
T ss_dssp             GCSCT----THHHHHHHHHCCCEEEEEC--SSSGGGE
T ss_pred             Cccch----HHHHHHHHHHCCCEEEEeC--CCChhhc
Confidence            63321    2356667778888887755  4555554

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.42  E-value=0.013  Score=44.96  Aligned_cols=26  Identities=23%  Similarity=0.416  Sum_probs=22.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .....++|.|++|+|||+|++.+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            45568999999999999999998764

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.37  E-value=0.0088  Score=47.26  Aligned_cols=24  Identities=21%  Similarity=0.308  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.|+|.|++|+|||+|++.+...
T Consensus        45 ~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           45 WRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CceEEEECCCCccHHHHHHHHHHH
Confidence            356999999999999999999864

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.36  E-value=0.007  Score=52.05  Aligned_cols=23  Identities=22%  Similarity=0.294  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            58999999999999999888654

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.36  E-value=0.029  Score=40.78  Aligned_cols=85  Identities=15%  Similarity=0.035  Sum_probs=55.1

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFE  147 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~  147 (221)
                      +.+.++|+|+..  .......+..+|.+++++..+...  ..+..++..+....  ..+.++.+|+|+.|....  .. .
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~~--~~-~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMAT--ML-N  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTEE--EE-H
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCch--HH-H
Confidence            568899999765  333445677799999999876443  56666666665543  235678999999995322  22 3


Q ss_pred             HHHHHHHHhCCeEE
Q psy2300         148 RGKHLAESLGVEFF  161 (221)
Q Consensus       148 ~~~~~~~~~~~~~~  161 (221)
                      +..++.+..+.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            44555555665544

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.36  E-value=0.011  Score=43.15  Aligned_cols=21  Identities=38%  Similarity=0.343  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998865

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.35  E-value=0.0096  Score=44.63  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -++|+|++|+|||||+..++.
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999877754

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.34  E-value=0.0097  Score=46.27  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|.|++|+|||+|++.+...
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.33  E-value=0.0094  Score=48.50  Aligned_cols=25  Identities=20%  Similarity=0.188  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.--|++.|+||+|||+|++++.+.
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHh
Confidence            3456999999999999999999864

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.30  E-value=0.0061  Score=52.21  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            48999999999999999877653

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.28  E-value=0.0095  Score=47.69  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|++.+...
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998764

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.28  E-value=0.012  Score=43.31  Aligned_cols=20  Identities=40%  Similarity=0.451  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q psy2300          23 KLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~   42 (221)
                      -.+|+|+.|+|||||+.++.
T Consensus        25 ~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           25 INLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEcCCCCCHHHHHHHHH
Confidence            34889999999999999874

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.27  E-value=0.011  Score=43.26  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..|+|+|++|+|||+|...|....
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            458999999999999999998764

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.25  E-value=0.0098  Score=47.58  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -+.|+|++|+|||||+..++...
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998753

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.23  E-value=0.011  Score=46.55  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|.|++|+|||+|++.+...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            457999999999999999999764

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.23  E-value=0.01  Score=47.09  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|.|++|+||||+++.+....
T Consensus        48 ~~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           48 HLLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            38999999999999999988653

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.22  E-value=0.0079  Score=51.59  Aligned_cols=23  Identities=13%  Similarity=0.271  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+..
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            58999999999999999887653

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.18  E-value=0.011  Score=47.45  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|.|++|+|||+|++.+....
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999988653

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.13  E-value=0.015  Score=50.00  Aligned_cols=23  Identities=26%  Similarity=0.429  Sum_probs=20.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      ++|+|+.|+|||||++.+.+..-
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            69999999999999999988653

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.06  E-value=0.0057  Score=46.75  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+++.|++|+|||+|++.+...
T Consensus        46 ~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4889999999999999998764

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.06  E-value=0.013  Score=48.12  Aligned_cols=25  Identities=20%  Similarity=0.207  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.--|++.|+||+|||+|++++.+.
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHHH
Confidence            3457999999999999999999865

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=95.03  E-value=0.0018  Score=48.57  Aligned_cols=22  Identities=14%  Similarity=0.306  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++|+|+.|||||||++.+.+..
T Consensus        30 ~~i~GpnGsGKSTll~~i~g~~   51 (227)
T 1qhl_A           30 TTLSGGNGAGKSTTMAAFVTAL   51 (227)
T ss_dssp             HHHHSCCSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhccc
Confidence            4789999999999999988654

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.99  E-value=0.017  Score=46.19  Aligned_cols=23  Identities=13%  Similarity=0.348  Sum_probs=19.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...|+|+|++|+||||+.+.|..
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la~   46 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELCQ   46 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHH
Confidence            46799999999999999987654

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.99  E-value=0.014  Score=46.35  Aligned_cols=21  Identities=29%  Similarity=0.539  Sum_probs=19.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++|.|++|+|||++++.+...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999998765

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.98  E-value=0.014  Score=46.82  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.|+|.|++|+|||+|++.+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998864

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.95  E-value=0.015  Score=45.88  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|++|||||||...|...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988753

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.93  E-value=0.014  Score=46.75  Aligned_cols=23  Identities=30%  Similarity=0.437  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998754

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=94.93  E-value=0.014  Score=49.03  Aligned_cols=23  Identities=30%  Similarity=0.505  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -|+|+|++|+|||+|++.+.+..
T Consensus        66 GvLL~GppGtGKTtLaraIa~~~   88 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGEA   88 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHT
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            39999999999999999998653

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.88  E-value=0.013  Score=46.93  Aligned_cols=24  Identities=21%  Similarity=0.141  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++|.|++|+|||+|++.+...
T Consensus        44 ~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           44 PSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHH
Confidence            347899999999999999998764

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.88  E-value=0.016  Score=46.05  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|+|++|||||||..+|...
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~   30 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKK   30 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHHH
Confidence            46899999999999999988753

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.86  E-value=0.013  Score=48.42  Aligned_cols=25  Identities=24%  Similarity=0.176  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.--|++.|+||+|||+|++++.+.
T Consensus       242 pprGILLyGPPGTGKTlLAkAiA~e  266 (467)
T 4b4t_H          242 PPKGILLYGPPGTGKTLCARAVANR  266 (467)
T ss_dssp             CCSEEEECSCTTSSHHHHHHHHHHH
T ss_pred             CCCceEeeCCCCCcHHHHHHHHHhc
Confidence            4457999999999999999999864

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=94.86  E-value=0.014  Score=49.50  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|++|+|||||++.+.+.
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            6899999999999999988754

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=94.85  E-value=0.015  Score=48.42  Aligned_cols=22  Identities=27%  Similarity=0.446  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -|+|+|++|+|||+|++.+.+.
T Consensus        51 gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           51 GILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999864

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=94.83  E-value=0.065  Score=42.00  Aligned_cols=22  Identities=23%  Similarity=0.249  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++.|++|+|||++++.+....
T Consensus        51 ~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHT
T ss_pred             EEeeCcCCCCHHHHHHHHHHHh
Confidence            4555669999999999997543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=94.82  E-value=0.018  Score=45.19  Aligned_cols=24  Identities=25%  Similarity=0.409  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.+++.|++|+|||+|+..+...
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            467999999999999999988753

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.81  E-value=0.018  Score=43.88  Aligned_cols=24  Identities=33%  Similarity=0.300  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..|+|.|++|+|||+|++.+....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~   53 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLS   53 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTS
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhc
Confidence            568999999999999999988654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=94.80  E-value=0.015  Score=49.12  Aligned_cols=19  Identities=37%  Similarity=0.618  Sum_probs=0.0

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q psy2300          24 LLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~   42 (221)
                      ++|+|++|||||||++.|+
T Consensus        42 ~~l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           42 TLVSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=94.80  E-value=0.016  Score=46.38  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=21.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.|+|.|++|+|||+|++.+...
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            457999999999999999999754

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=94.78  E-value=0.019  Score=51.93  Aligned_cols=24  Identities=21%  Similarity=0.367  Sum_probs=21.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      .++|+|+.|+|||||++.+.++..
T Consensus       463 ~v~LiGpNGsGKSTLLk~LagG~i  486 (986)
T 2iw3_A          463 RYGICGPNGCGKSTLMRAIANGQV  486 (986)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            479999999999999999997543

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.77  E-value=0.022  Score=42.86  Aligned_cols=23  Identities=35%  Similarity=0.479  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..|+|.|..||||||+++.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            46899999999999999998754

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.75  E-value=0.23  Score=36.94  Aligned_cols=89  Identities=9%  Similarity=0.110  Sum_probs=59.6

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      +.+.++|+|+.-  .......+..+|.+++++..+ ..+...+..++..+.....+...+.+|+|+.+....  ...+  
T Consensus       119 yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~~--~~~~--  191 (245)
T 3ea0_A          119 YDYIIVDFGASI--DHVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNSR--ITSD--  191 (245)
T ss_dssp             CSEEEEEEESSC--CTTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCTT--SCHH--
T ss_pred             CCEEEEeCCCCC--chHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCCC--CCHH--
Confidence            568899998753  234455678899999999864 566777777777776654335668899999986432  3333  


Q ss_pred             HHHHHHhCCeEEEEecC
Q psy2300         150 KHLAESLGVEFFETSAK  166 (221)
Q Consensus       150 ~~~~~~~~~~~~~~Sa~  166 (221)
                       .+.+..+.+++.+-..
T Consensus       192 -~~~~~~~~~v~~~ip~  207 (245)
T 3ea0_A          192 -EIEKVIGRPISKRIPQ  207 (245)
T ss_dssp             -HHHHHHTSCEEEEECC
T ss_pred             -HHHHHhCCCeEEECCC
Confidence             3334467777665443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=94.75  E-value=0.016  Score=47.80  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++|.|++|+|||+|++.+.+.
T Consensus       131 ~~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          131 NPLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999988764

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=94.74  E-value=0.018  Score=46.20  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ...|+|.|++|+|||++.+.+....
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999987543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	221
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-55
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-51
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	4e-51
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-49
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-48
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	6e-47
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	8e-46
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	9e-46
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-45
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-43
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	3e-43
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	8e-42
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	6e-40
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	7e-38
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-36
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-35
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-34
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-33
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	8e-33
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-32
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	4e-32
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	5e-32
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	1e-31
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-31
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	5e-31
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	7e-31
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	1e-30
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	3e-30
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	4e-30
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	3e-29
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	5e-29
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-28
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-28
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	3e-28
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	5e-28
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	6e-28
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-27
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-27
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-25
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	4e-25
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	7e-25
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-24
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-24
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	4e-24
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	5e-24
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	6e-23
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	5e-22
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-21
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-21
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-20
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	7e-20
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-19
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	5e-19
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	6e-18
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	1e-16
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-15
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	3e-09
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	1e-08
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	6e-06
d1egaa1	179	c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {	1e-05
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	1e-05
d1svia_	195	c.37.1.8 (A:) Probable GTPase EngB {Bacillus subti	7e-05
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	2e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	3e-04
d1mkya1	171	c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal	0.001
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	0.001
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	0.004
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	0.004

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  172 bits (437), Expect = 2e-55
 Identities = 95/173 (54%), Positives = 135/173 (78%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           + +DY+FKLL+IG+S VGKT  LFR+++D+F S F+ST+GIDFK++T+    KR+KLQIW
Sbjct: 1   KTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIW 60

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
           DTAGQER+RTITTAYYRGAMG +L+YD+TNE+SF +I++WI  I+ ++  + + +++GNK
Sbjct: 61  DTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNK 120

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           CD+ D+R +S ERG+ LA   G++F ETSAK N+NV+  F  L   I  KM +
Sbjct: 121 CDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  161 bits (408), Expect = 3e-51
 Identities = 144/169 (85%), Positives = 159/169 (94%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           NFDYMFK+LIIGNSSVGKTSFLFRYADDSFT AFVSTVGIDFKVKT++R+DKR+KLQIWD
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWD 60

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQERYRTITTAYYRGAMGFILMYD+TNEESF ++QDW TQIKTYSWDNAQV+LVGNKC
Sbjct: 61  TAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKC 120

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           DMEDERV+S ERG+ LA+ LG EFFE SAKDN+NVK  FERLVD+IC+K
Sbjct: 121 DMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  161 bits (408), Expect = 4e-51
 Identities = 87/166 (52%), Positives = 128/166 (77%), Gaps = 1/166 (0%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K+L+IG+S VGK+  L R+ +D F  +F++T+GIDFK+KTV  + K+VKLQIWDTAGQ
Sbjct: 2   IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQ 61

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           ER+RTITTAYYRGAMG IL+YD+T+E +FT+I+ W   +  ++ D AQ++LVGNK DM +
Sbjct: 62  ERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDM-E 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
            RV++ ++G+ LA+ LG+ F E+SAK++ NV  +F  L  +I +K+
Sbjct: 121 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  158 bits (399), Expect = 2e-49
 Identities = 87/186 (46%), Positives = 131/186 (70%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FKLL+IGNS VGK+  L R++DD++T+ ++ST+G+DFK+KTV    K VKLQIWDT
Sbjct: 3   YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDT 62

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+RTIT++YYRG+ G I++YDVT++ESF  ++ W+ +I  Y+      +LVGNKCD
Sbjct: 63  AGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCD 122

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESLDSDPNLV 197
           ++D+RV+ ++  K  A++  + F ETSA D+ NV+  F  +   I + MS+   ++    
Sbjct: 123 LKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQK 182

Query: 198 AGPKGT 203
              KG 
Sbjct: 183 KEDKGN 188

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  154 bits (390), Expect = 2e-48
 Identities = 70/170 (41%), Positives = 114/170 (67%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           ++D++FK+++IGN+ VGKT  + R+    F     +T+G+DF +KTV  + ++VKLQIWD
Sbjct: 1   DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWD 60

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQER+R+IT +YYR A   IL YD+T EESF  + +W+ +I+ Y+ +    +LVGNK 
Sbjct: 61  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKI 120

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           D+ + R +S +R +  +E+  + + ETSAK++ NV+ +F  L   +  + 
Sbjct: 121 DLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEA 170

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  150 bits (380), Expect = 6e-47
 Identities = 77/166 (46%), Positives = 112/166 (67%), Gaps = 1/166 (0%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWD 76
           +D  FK++++G+S VGKT  L R+ D +F +  F+STVGIDF+ K +     +VKLQ+WD
Sbjct: 3   YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWD 62

Query: 77  TAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKC 136
           TAGQER+R++T AYYR A   +L+YDVTN+ SF +IQ W+T+I  Y+  +  ++L+GNK 
Sbjct: 63  TAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKV 122

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           D   ERV+  E G+ LA+  G+ F ETSAK  +NV   F  +   +
Sbjct: 123 DSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  147 bits (372), Expect = 8e-46
 Identities = 62/165 (37%), Positives = 101/165 (61%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           + Y+FK +IIG+  VGK+  L ++ +  F +    T+G++F  + +    +++KLQIWDT
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDT 60

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+R +T +YYRGA G +++YD+T   ++  +  W+T  +  +  N  +IL+GNK D
Sbjct: 61  AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKAD 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +E +R +++E  K  AE  G+ F E SAK   NV+  F      I
Sbjct: 121 LEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  148 bits (374), Expect = 9e-46
 Identities = 77/186 (41%), Positives = 130/186 (69%), Gaps = 11/186 (5%)

Query: 17  NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK-------- 68
           ++DY+ KLL +G+S VGKT+FL+RY D+ F   F++TVGIDF+ K V  + +        
Sbjct: 1   DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGK 60

Query: 69  --RVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN 126
             +V LQ+WDTAGQER+R++TTA++R AMGF+LM+D+T+++SF ++++W++Q++  ++  
Sbjct: 61  AFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCE 120

Query: 127 AQVI-LVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
              I L+GNK D+ D+R ++  + + LA+  G+ +FETSA    NV+   E L+D+I  +
Sbjct: 121 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKR 180

Query: 186 MSESLD 191
           M + ++
Sbjct: 181 MEQCVE 186

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  147 bits (371), Expect = 2e-45
 Identities = 65/171 (38%), Positives = 112/171 (65%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +DY+FK+++IG+S VGK++ L R+  + F     ST+G++F  +++    K +K QIWDT
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQERYR IT+AYYRGA+G +L+YD+    ++ +++ W+ +++ ++  N  ++LVGNK D
Sbjct: 61  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSD 120

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           +   R +  +  +  AE   + F ETSA D+ NV+  F+ ++  I   +S+
Sbjct: 121 LRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQ 171

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  142 bits (358), Expect = 1e-43
 Identities = 64/169 (37%), Positives = 105/169 (62%)

Query: 18  FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +D++FK L+IGN+  GK+  L ++ +  F      T+G++F  K +    K VKLQIWDT
Sbjct: 2   YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDT 61

Query: 78  AGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD 137
           AGQER+R++T +YYRGA G +L+YD+T+ E++ ++ +W+T  +  +  N  +IL GNK D
Sbjct: 62  AGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKD 121

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           ++ +R ++F      A+   + F ETSA    NV+  F +    I +K+
Sbjct: 122 LDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKI 170

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  141 bits (356), Expect = 3e-43
 Identities = 69/171 (40%), Positives = 103/171 (60%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y+FK +IIG++ VGK+  L ++ D  F      T+G++F  + V    K++KLQIWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QE +R+IT +YYRGA G +L+YD+T  E+F  +  W+   + +S  N  ++L+GNK D+E
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLE 121

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
             R +  E G+  A   G+ F ETSAK   NV+  F      I  K+ + L
Sbjct: 122 SRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 172

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  138 bits (347), Expect = 8e-42
 Identities = 70/168 (41%), Positives = 101/168 (60%)

Query: 15  DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
           D++     K+LIIG S VGK+S L R+ DD+F     +T+G+DFKVKT+     + KL I
Sbjct: 1   DEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAI 60

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
           WDTAGQER+RT+T +YYRGA G IL+YDVT  ++F  + +W+ +++TY   N  V ++  
Sbjct: 61  WDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVG 120

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
               ++ R +    G   A    + F E SAK    V+  FE LV+ I
Sbjct: 121 NKIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKI 168

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  132 bits (333), Expect = 6e-40
 Identities = 69/161 (42%), Positives = 105/161 (65%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+ +G  SVGKTS + R+  DSF + + +T+GIDF  KT++  D+ ++LQ+WDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R++  +Y R +   +++YD+TN  SF     WI  ++T    +  ++LVGNK D+ D+
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADK 120

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +S E G+  A+ L V F ETSAK   NVK +F R+   +
Sbjct: 121 RQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  127 bits (320), Expect = 7e-38
 Identities = 62/163 (38%), Positives = 101/163 (61%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y FK++++G   VGKTS + RY ++ F    ++T+G  F  K +    KRV L IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           QER+  +   YYR + G IL+YD+T+E+SF  +++W+ +++    +   + +VGNK D+E
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLE 121

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            ER +S +  +  AES+G + + TSAK N  ++ +F  L   +
Sbjct: 122 KERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 164

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  124 bits (311), Expect = 1e-36
 Identities = 63/162 (38%), Positives = 99/162 (61%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
            FKL+++G S+VGK+S + R+    F     ST+G  F  +TV   D  VK +IWDTAGQ
Sbjct: 6   QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQ 65

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED 140
           ERY ++   YYRGA   I++YD+TNEESF   ++W+ +++  +  N  + L GNK D+ +
Sbjct: 66  ERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLAN 125

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +R + F+  +  A+   + F ETSAK ++NV  +F  +   +
Sbjct: 126 KRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  120 bits (301), Expect = 4e-35
 Identities = 55/159 (34%), Positives = 87/159 (54%), Gaps = 2/159 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K++++G+  VGK++   ++   +F   +  T+  DF  K +        L+I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMED 140
           ++ ++   Y +   GFIL+Y + N++SF  I+    QI     ++   VILVGNK D+E 
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           ER +S   G+ LAE  G  F ETSAK    V  +F  +V
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIV 161

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  119 bits (298), Expect = 1e-34
 Identities = 54/168 (32%), Positives = 95/168 (56%), Gaps = 4/168 (2%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
             +FK++++G+  VGK+S + RY  + F +    T+G++F  K +      V +QIWDTA
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY----SWDNAQVILVGN 134
           GQER+R++ T +YRG+   +L + V + +SF ++ +W  +   Y      ++   +++GN
Sbjct: 64  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 123

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           K D+ + +V + E      ++    +FETSAKD  NV   FE  V  +
Sbjct: 124 KIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 3e-33
 Identities = 46/181 (25%), Positives = 78/181 (43%), Gaps = 14/181 (7%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  + F S +V TV  D    TV    +   L ++DTAGQE
Sbjct: 4   IKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
            Y  +    Y     F++ + V +  SF ++++      T+       +LVG + D+ D+
Sbjct: 63  DYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDD 122

Query: 142 RVI------------SFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
                          + E  + LA  L  V++ E SA     +K VF+  +    +    
Sbjct: 123 PSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEP 182

Query: 189 S 189
            
Sbjct: 183 K 183

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  115 bits (287), Expect = 8e-33
 Identities = 51/182 (28%), Positives = 84/182 (46%), Gaps = 14/182 (7%)

Query: 14  ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQ 73
           A      M K +++G+ +VGKT  L  YA+D+F   +V TV  D    +V    K+  L 
Sbjct: 2   AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLG 60

Query: 74  IWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
           ++DTAGQE Y  +    Y     F++ + V N  SF ++++           N   +L+G
Sbjct: 61  LYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIG 120

Query: 134 NKCDMEDERV------------ISFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVD 180
            + D+ D+              I  E+G+ LA+ +G   + E SA     +K VF+  + 
Sbjct: 121 TQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII 180

Query: 181 II 182
            I
Sbjct: 181 AI 182

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  113 bits (284), Expect = 1e-32
 Identities = 58/161 (36%), Positives = 99/161 (61%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ ++G++ VGK+S ++R+ +DSF      T+G  F  KTV   ++  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           R+R +   YYRG+   I++YD+T EE+F+++++W+ +++ +   +  V + GNKCD+ D 
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDV 124

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           R +     K  A+S+   F ETSAK+ +N+  +F  +   I
Sbjct: 125 REVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 165

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (283), Expect = 4e-32
 Identities = 45/174 (25%), Positives = 80/174 (45%), Gaps = 14/174 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K +++G+ +VGKT  L  Y  ++F   ++ TV  D     V    K V L +WDTAGQE
Sbjct: 6   IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
            Y  +    Y      ++ + + +  SF +++        +   N  +ILVG K D+ D+
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDD 124

Query: 142 RVIS------------FERGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
           +               + +G  +A+ +G V++ E SA     +K VF+  +  +
Sbjct: 125 KDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (280), Expect = 5e-32
 Identities = 53/162 (32%), Positives = 81/162 (50%), Gaps = 3/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G   VGK++   +   + F   +  T+  D   K V    +   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMED 140
            Y  +   Y R   GF+ ++ + N +SF  I  +  QIK     D+  ++LVGNKCD+  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
              +   + + LA S G+ + ETSAK    V+  F  LV  I
Sbjct: 123 RT-VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  111 bits (278), Expect = 1e-31
 Identities = 59/163 (36%), Positives = 88/163 (53%), Gaps = 2/163 (1%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++++G+  VGK++   ++  D F   +  T   D   K V    + V++ I DTAGQ
Sbjct: 4   LHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQIDILDTAGQ 62

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD-NAQVILVGNKCDME 139
           E Y  I   Y+R   GF+ ++ +T  ESF +  D+  QI     D N   +LVGNK D+E
Sbjct: 63  EDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLE 122

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           D+R +S E  K+ A+   V + ETSAK   NV  VF  L+  I
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  111 bits (278), Expect = 1e-31
 Identities = 62/163 (38%), Positives = 96/163 (58%), Gaps = 3/163 (1%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KL+++G ++VGK+S + R+  + F      T+G  F  + V  ++  VK +IWDTAGQER
Sbjct: 5   KLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQER 64

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM---E 139
           + ++   YYR A   +++YDVT  +SF   + W+ ++   +  +  + LVGNK DM    
Sbjct: 65  FASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEG 124

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            ER ++ E G+ LAE  G+ FFETSAK   NV  VF  + + I
Sbjct: 125 GERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  110 bits (274), Expect = 5e-31
 Identities = 53/162 (32%), Positives = 87/162 (53%), Gaps = 2/162 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           ++L+++G   VGK++   ++    F + +  T+  D   K     D+  +L I DTAGQE
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQE 64

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+L++ VT+  SF  I  +  Q ++    D   +IL+GNK D++ 
Sbjct: 65  EFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDH 124

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +R ++ E G+ LA  L V + E SAK  +NV   F  LV +I
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVI 166

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  109 bits (273), Expect = 7e-31
 Identities = 51/165 (30%), Positives = 79/165 (47%), Gaps = 2/165 (1%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
               KL+++G   VGK++   ++    F S +      D   K         +L I DTA
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDY-DPTIEDSYTKICSVDGIPARLDILDTA 62

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCD 137
           GQE +  +   Y R   GF+L++ + + +SF  +    TQI +    D+  V+LVGNK D
Sbjct: 63  GQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKAD 122

Query: 138 MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +E +R +          S  V +FE SAK  +NV   FE+LV  +
Sbjct: 123 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAV 167

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  109 bits (273), Expect = 1e-30
 Identities = 57/172 (33%), Positives = 101/172 (58%), Gaps = 4/172 (2%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           + K++I+G+S VGKTS + +Y +  F++ + +T+G DF  K V   D+ V +QIWDTAGQ
Sbjct: 2   LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQ 61

Query: 81  ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY----SWDNAQVILVGNKC 136
           ER++++  A+YRGA   +L++DVT   +F ++  W  +          +N   +++GNK 
Sbjct: 62  ERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKI 121

Query: 137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
           D+E+ +V +            + +FETSAK+ +NV+  F+ +      + +E
Sbjct: 122 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETE 173

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  107 bits (268), Expect = 3e-30
 Identities = 57/163 (34%), Positives = 92/163 (56%), Gaps = 3/163 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+  D   K V    ++  L+I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTE 62

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
           ++  +   Y +   GF L+Y +T + +F  +QD   QI +    ++  +ILVGNKCD+ED
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 141 ERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVFERLVDII 182
           ERV+  E+G++LA       F E+SAK  +NV  +F  LV  I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  107 bits (267), Expect = 4e-30
 Identities = 60/163 (36%), Positives = 99/163 (60%), Gaps = 5/163 (3%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ 80
           +FK+++IG+S+VGKT   +R+    F     +T+G+DF+ + V    +R+K+Q+WDTAGQ
Sbjct: 2   IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQ 61

Query: 81  ERY-RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDM 138
           ER+ +++   YYR     + +YD+TN  SF S+  WI + K +   ++   ILVGNKCD+
Sbjct: 62  ERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDL 121

Query: 139 EDERVISFERGKHLAESLGVEFFETSAK---DNVNVKGVFERL 178
                +  +  +  A++  +  FETSAK   DN +V+ +F  L
Sbjct: 122 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  105 bits (262), Expect = 3e-29
 Identities = 45/163 (27%), Positives = 79/163 (48%), Gaps = 3/163 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +++ + G   VGK+S + R+   +F  +++ TV   ++            LQI DT G  
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDK-SICTLQITDTTGSH 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDME 139
           ++  +          FIL+Y +T+ +S   ++    QI       ++  ++LVGNKCD  
Sbjct: 62  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 121

Query: 140 DERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
             R +     + LA +    F ETSAK N NVK +F+ L+++ 
Sbjct: 122 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE 164

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  104 bits (260), Expect = 5e-29
 Identities = 65/169 (38%), Positives = 104/169 (61%), Gaps = 7/169 (4%)

Query: 21  MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRV-KLQIWDTAG 79
           + K++I+G+S VGKTS + RY +D ++  + +T+G DF  K V     +V  +Q+WDTAG
Sbjct: 2   ILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ----VILVGNK 135
           QER++++  A+YRGA   +L+YDVTN  SF +I+ W  +   ++  N+      +++GNK
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNK 121

Query: 136 CDMEDERVISFE-RGKHLAESLG-VEFFETSAKDNVNVKGVFERLVDII 182
            D E+ + I  E   + LA+SLG +  F TSAK+ +NV   FE +    
Sbjct: 122 IDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSA 170

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score =  103 bits (257), Expect = 1e-28
 Identities = 28/162 (17%), Positives = 61/162 (37%), Gaps = 9/162 (5%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           ++L++G  + GKT+ L++            T              K +   +WD  GQ++
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI-----VTTIPTIGFNVETVEYKNISFTVWDVGGQDK 56

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED- 140
            R +   Y++   G I + D  + E     ++ + + +      +A +++  NK D+ + 
Sbjct: 57  IRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA 116

Query: 141 --ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD 180
                I+ + G H           T A     +    + L +
Sbjct: 117 MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSN 158

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (257), Expect = 2e-28
 Identities = 48/171 (28%), Positives = 78/171 (45%), Gaps = 14/171 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL+I+G+ + GKT  L   + D F   +V TV  +  V  +    K+V+L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
            Y  +    Y      ++ + + + +S  +I +  T    +   N  +ILVGNK D+ ++
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 121

Query: 142 RVI------------SFERGKHLAESLG-VEFFETSAKDNVNVKGVFERLV 179
                            E G+ +A  +G   + E SAK    V+ VFE   
Sbjct: 122 EHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMAT 172

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score =  103 bits (256), Expect = 3e-28
 Identities = 34/168 (20%), Positives = 67/168 (39%), Gaps = 9/168 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R       +    T+G + +  +     K +KL +WD  GQ 
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTKP-TIGFNVETLS----YKNLKLNVWDLGGQT 72

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMED 140
             R     YY      I + D T+++  ++    +  +       +A +++  NK D   
Sbjct: 73  SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 141 ---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
                 +S E      +        +SA     +    + L+D+I ++
Sbjct: 133 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  102 bits (254), Expect = 5e-28
 Identities = 41/177 (23%), Positives = 83/177 (46%), Gaps = 15/177 (8%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++G+S  GKT+ L  +A D F   +V TV  +    +     +R++L +WDT+G   
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPY 62

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED-- 140
           Y  +    Y  +   ++ +D++  E+  S+             N +++LVG K D+    
Sbjct: 63  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDV 122

Query: 141 ----------ERVISFERGKHLAESLG-VEFFETSAKDNVN-VKGVFERLVDIICDK 185
                     +  +S+++G ++A+ +G   + E SA  + N V+ +F        +K
Sbjct: 123 STLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 179

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  102 bits (253), Expect = 6e-28
 Identities = 60/160 (37%), Positives = 96/160 (60%), Gaps = 1/160 (0%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           K++++GN +VGK+S + RY    FT  +  T+G+DF  + +  +D+ V+L +WDTAGQE 
Sbjct: 4   KMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEE 63

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER 142
           +  IT AYYRGA   +L++  T+ ESF +I  W  ++      +    LV NK D+ D+ 
Sbjct: 64  FDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAE-VGDIPTALVQNKIDLLDDS 122

Query: 143 VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            I  E  + LA+ L + F+ TS K+++NV  VF+ L +  
Sbjct: 123 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score =  101 bits (251), Expect = 2e-27
 Identities = 31/165 (18%), Positives = 57/165 (34%), Gaps = 9/165 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++L++G  + GKT+ L++            T              K VK  +WD  GQ+
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSV-----TTIPTVGFNVETVTYKNVKFNVWDVGGQD 67

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED 140
           + R +   YY G  G I + D  + +     +  + +I       +A +++  NK D+ D
Sbjct: 68  KIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD 127

Query: 141 ERV---ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
                 I  + G             + A     +      L    
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  100 bits (250), Expect = 2e-27
 Identities = 49/163 (30%), Positives = 87/163 (53%), Gaps = 3/163 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +KL+++G+  VGK++   ++    F   +  T+  D  +K     ++   L + DTAGQE
Sbjct: 5   YKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTI-EDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
            +  +   Y R   GF+++Y VT++ SF  +  +   I +    ++  +ILV NK D+  
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMH 123

Query: 141 ERVISFERGKHLAESLGVEFFETSAKD-NVNVKGVFERLVDII 182
            R ++ ++GK +A    + + ETSAKD  +NV   F  LV +I
Sbjct: 124 LRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVI 166

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 95.8 bits (237), Expect = 1e-25
 Identities = 45/163 (27%), Positives = 75/163 (46%), Gaps = 4/163 (2%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL I G + VGK++ + R+    F   +  T+   ++ +      + V ++I DT   +
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDD-EVVSMEILDT-AGQ 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWIT-QIKTYSWDNAQVILVGNKCDMED 140
                   + R   GF+L+YD+T+  SF  +        +     N  +ILVGNK D++ 
Sbjct: 61  EDTIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDH 120

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDN-VNVKGVFERLVDII 182
            R +S E G+ LA  L   F+E SA     N+  +F  L   +
Sbjct: 121 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 163

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 94.6 bits (234), Expect = 4e-25
 Identities = 33/168 (19%), Positives = 61/168 (36%), Gaps = 9/168 (5%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D   ++L++G  + GKT+ L + A +   S    T G + K        +  KL +WD  
Sbjct: 14  DQEVRILLLGLDNAGKTTLLKQLASEDI-SHITPTQGFNIK----SVQSQGFKLNVWDIG 68

Query: 79  GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCD 137
           GQ + R    +Y+      I + D  + + F      +T++          V++  NK D
Sbjct: 69  GQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQD 128

Query: 138 MEDER---VISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +        I+     H       +    SA     V+     +   +
Sbjct: 129 LLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 94.0 bits (232), Expect = 7e-25
 Identities = 32/168 (19%), Positives = 60/168 (35%), Gaps = 9/168 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +LL++G  + GKT+ L ++  +      V T+             +  KL IWD  GQ+
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGE-----DVDTISPTLGFNIKTLEHRGFKLNIWDVGGQK 57

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED 140
             R+    Y+    G I + D  + +     Q  +  +        A +++  NK D+  
Sbjct: 58  SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG 117

Query: 141 ERVIS---FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
               +            S        SA    ++    + L+D I  +
Sbjct: 118 ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.2 bits (230), Expect = 2e-24
 Identities = 45/161 (27%), Positives = 85/161 (52%), Gaps = 3/161 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           FKL+++G+   GKT+F+ R+    F   +V+T+G++        +   +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
           ++  +   YY  A   I+M+DVT+  ++ ++ +W   +      N  ++L GNK D++D 
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDR 122

Query: 142 RVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           +V +            +++++ SAK N N +  F  L   +
Sbjct: 123 KVKAKSI--VFHRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 93.1 bits (230), Expect = 4e-24
 Identities = 36/198 (18%), Positives = 65/198 (32%), Gaps = 43/198 (21%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KLL++G    GK++F+ +      +   V T GI      +         ++ D  GQ 
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHGSG--VPTTGIIEYPFDLQSVIF----RMVDVGGQR 56

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEES-----------FTSIQDWITQIKTYSWDNAQVI 130
             R      +      + +  ++  +              S   + T I    + N+ VI
Sbjct: 57  SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVI 116

Query: 131 LVGNKCDMEDERVISFERGKHLAESLGVE--------------------------FFETS 164
           L  NK D+ +E+++      +  E  G +                             T 
Sbjct: 117 LFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTC 176

Query: 165 AKDNVNVKGVFERLVDII 182
           A D  N++ VF  + D I
Sbjct: 177 ATDTENIRFVFAAVKDTI 194

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 92.1 bits (227), Expect = 4e-24
 Identities = 56/159 (35%), Positives = 85/159 (53%), Gaps = 2/159 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ I+G  SVGK+S   ++ +  F  ++  T+  +   K +  + +   LQ+ DTAGQ+
Sbjct: 5   RKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWI-TQIKTYSWDNAQVILVGNKCDMED 140
            Y      Y     G+IL+Y VT+ +SF  I+      +         ++LVGNK D+  
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHM 123

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
           ERVIS+E GK LAES    F E+SAK+N     VF R++
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 162

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 92.0 bits (227), Expect = 5e-24
 Identities = 27/165 (16%), Positives = 60/165 (36%), Gaps = 9/165 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K++I+G  + GKT+ L++++ +                          +  +WD  GQE
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEV-----VHTSPTIGSNVEEIVINNTRFLMWDIGGQE 70

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMED 140
             R+    YY      I++ D T+ E  +  ++ + + +       A +++  NK D+++
Sbjct: 71  SLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 141 ---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
                 IS        +          A     +    E ++  +
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 89.0 bits (219), Expect = 6e-23
 Identities = 38/166 (22%), Positives = 75/166 (45%), Gaps = 3/166 (1%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           +K+L++G   VGK++    +          +        +++    +   L ++D   Q+
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGP--EAEAAGHTYDRSIVVDGEEASLMVYDIWEQD 59

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDN-AQVILVGNKCDMED 140
             R +          ++++Y VT++ SF    +   Q++     +   +ILVGNK D+  
Sbjct: 60  GGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVR 119

Query: 141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
            R +S + G+  A     +F ETSA  + NV+ +FE +V  I  + 
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR 165

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.6 bits (213), Expect = 5e-22
 Identities = 26/171 (15%), Positives = 66/171 (38%), Gaps = 7/171 (4%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G++  GK+S + R+   S+    +     +   K +    +   + I + AG  
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQV--LEKTESEQYKKEMLVDGQTHLVLIREEAGAP 63

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE 141
             +          +    + D  + ++ + +   ++ ++        + LVG +  +   
Sbjct: 64  DAKFSGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISAS 121

Query: 142 --RVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
             RV+   R + L   +    ++ET A   +NV  VF+ +   +     + 
Sbjct: 122 SPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ 172

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 85.1 bits (209), Expect = 2e-21
 Identities = 35/168 (20%), Positives = 59/168 (35%), Gaps = 9/168 (5%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            ++LI+G    GKT+ L+R            T              K +K Q+WD  G  
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEV-----VTTIPTIGFNVETVTYKNLKFQVWDLGGLT 60

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED 140
             R     YY      I + D  + +     +  +  + +      A +++  NK DME 
Sbjct: 61  SIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ 120

Query: 141 ERVIS---FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
               S      G    +    + F+TSA     +    E LV+ +  +
Sbjct: 121 AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 84.7 bits (208), Expect = 2e-21
 Identities = 25/168 (14%), Positives = 53/168 (31%), Gaps = 16/168 (9%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
           KLL +G  + GKT+ L    +D       +T+   +   +       +K   +D  G  +
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL-----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQ 56

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCD----- 137
            R +   Y+    G + + D  + E F   +  +  +   +       ++          
Sbjct: 57  ARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 138 ------MEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
                      +++    + +     VE F  S          F+ L 
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLS 164

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 82.8 bits (203), Expect = 1e-20
 Identities = 32/162 (19%), Positives = 66/162 (40%), Gaps = 8/162 (4%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            +L ++G    GKT+F+   A   F    + T                V +++WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPT----VGFNMRKITKGNVTIKLWDIGGQP 58

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED 140
           R+R++   Y RG    + M D  ++E   + ++ +  +          V+++GNK D+  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG 118

Query: 141 ---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV 179
              E+ +  +      +   +  +  S K+  N+    + L+
Sbjct: 119 ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI 160

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 81.9 bits (201), Expect = 7e-20
 Identities = 31/199 (15%), Positives = 58/199 (29%), Gaps = 45/199 (22%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+L++G    GK++FL +            T GI      +         ++ D  GQ 
Sbjct: 3   VKILLLGAGESGKSTFLKQMRIIHGQ---DPTKGIHEYDFEIKNVPF----KMVDVGGQR 55

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-----------DNAQVI 130
             R      +      + +   +  +          ++                 N  +I
Sbjct: 56  SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSII 115

Query: 131 LVGNKCDMEDERVISFERGKHLAESLG---------------------------VEFFET 163
           L  NK D+ +E+V       +  E  G                           +    T
Sbjct: 116 LFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFT 175

Query: 164 SAKDNVNVKGVFERLVDII 182
           +A +  N++ VF  + D I
Sbjct: 176 TAINTENIRLVFRDVKDTI 194

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 79.0 bits (193), Expect = 3e-19
 Identities = 37/167 (22%), Positives = 76/167 (45%), Gaps = 3/167 (1%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFT-SAFVSTVGIDFKVKTVFRHDKRVKLQIWDT 77
           +  +++++IG   VGK++    +A    +  +    +G D   +T+    +   + + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 78  A-GQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNK 135
              +     +     +    ++++Y +T+  SF    +   Q++     ++  +ILVGNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            D+   R +S   G+  A     +F ETSA    NVK +FE +V  +
Sbjct: 121 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 167

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 79.8 bits (196), Expect = 5e-19
 Identities = 29/192 (15%), Positives = 56/192 (29%), Gaps = 20/192 (10%)

Query: 16  QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIW 75
           Q +    +LL++G    GK++ + +          V T GI      V     +V   ++
Sbjct: 1   QVYRATHRLLLLGAGESGKSTIVKQMRILH----VVLTSGIFETKFQV----DKVNFHMF 52

Query: 76  DTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW----------- 124
           D  GQ   R      +      I +   ++        +   +++               
Sbjct: 53  DVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWL 112

Query: 125 DNAQVILVGNKCDMEDERVI-SFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIIC 183
               VIL  NK D+  E+V+    + +              A           R    I 
Sbjct: 113 RTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIR 172

Query: 184 DKMSESLDSDPN 195
           D+      +  +
Sbjct: 173 DEFLRISTASGD 184

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 76.5 bits (187), Expect = 6e-18
 Identities = 32/198 (16%), Positives = 64/198 (32%), Gaps = 46/198 (23%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KLL++G    GK++ + +           +  GI           K +  +++D  GQ 
Sbjct: 3   VKLLLLGAGESGKSTIVKQMKIIHE-----AGTGI----VETHFTFKDLHFKMFDVGGQR 53

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSI-----------QDWITQIKTYSWDNAQVI 130
             R      + G    I    +++ +   +            + + +      + +  +I
Sbjct: 54  SERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSII 113

Query: 131 LVGNKCDMEDERVISFERGKHLAESLG--------------------------VEFFETS 164
           L  NK D+ +E++          E  G                          +    T 
Sbjct: 114 LFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTC 173

Query: 165 AKDNVNVKGVFERLVDII 182
           A D  NV+ VF+ + D+I
Sbjct: 174 ATDTKNVQFVFDAVTDVI 191

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 72.8 bits (177), Expect = 1e-16
 Identities = 25/177 (14%), Positives = 49/177 (27%), Gaps = 21/177 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            KL+ +G  + GKT+ L    DD           +    + +                  
Sbjct: 14  GKLVFLGLDNAGKTTLLHMLKDDRLGQ---HVPTLHPTSEELTIAGMTFTTFDLGG--HI 68

Query: 82  RYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQVILVGNKCDMED 140
           + R +   Y     G + + D  + E     ++ +  + T     N  ++++GNK D  +
Sbjct: 69  QARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE 128

Query: 141 ERVIS---------------FERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
                                        +  +E F  S          F  +   I
Sbjct: 129 AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 70.0 bits (170), Expect = 2e-15
 Identities = 19/201 (9%), Positives = 54/201 (26%), Gaps = 13/201 (6%)

Query: 23  KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER 82
            +L +G    GKT    R     +     +++     +  V  +       I     +  
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKVNNNRGNSLTLIDLPGHESL 60

Query: 83  YRTITTAYYRGAMGFILMYDVTNEESF----TSIQDWITQIKTYSWDNAQVILVGNKCDM 138
              +   +   A   + + D    +            +        ++  +++  NK D+
Sbjct: 61  RFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDI 120

Query: 139 EDERVISFERGK--------HLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSESL 190
              +     + +         +  S      ++S+     +    +           E L
Sbjct: 121 AMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFL 180

Query: 191 DSDPNLVAGPKGTRLTEQPQR 211
           +       G  G+   +  ++
Sbjct: 181 ECSAKGGRGDTGSADIQDLEK 201

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 52.7 bits (125), Expect = 3e-09
 Identities = 29/206 (14%), Positives = 64/206 (31%), Gaps = 27/206 (13%)

Query: 20  YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG 79
           Y   ++I G  + GKTS L     DS       TV     +         V   + D  G
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTTDS----VRPTVVSQEPLSAADYDGSGV--TLVDFPG 55

Query: 80  QERYRTITTAYY-----RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ----VI 130
             + R   + Y             ++    + +  T+  +++  I + +  + +    ++
Sbjct: 56  HVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDIL 115

Query: 131 LVGNKCDMEDERVISFERGKHLAE--------SLGVEFFETSAKDNVNVKGVFERLVDII 182
           +  NK ++   R  S  +    +E           +   E    +        E  +D++
Sbjct: 116 IACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDY----AENTLDVL 171

Query: 183 CDKMSESLDSDPNLVAGPKGTRLTEQ 208
                    +    V   +G+    +
Sbjct: 172 QSTDGFKFANLEASVVAFEGSINKRK 197

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 50.1 bits (118), Expect = 1e-08
 Identities = 27/172 (15%), Positives = 47/172 (27%), Gaps = 19/172 (11%)

Query: 22  FKLLIIGNSSVGKTSFLFRY-------ADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQI 74
            K++I G  + GK+S L            D   +                       L+ 
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 75  WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGN 134
                +             A   + M D T  ++    + W   I         + +V N
Sbjct: 62  ASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKL-PITVVRN 120

Query: 135 KCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKM 186
           K D+  E          ++E  G      SA+    V    + L + +   M
Sbjct: 121 KADITGET-------LGMSEVNGHALIRLSARTGEGV----DVLRNHLKQSM 161

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.0 bits (103), Expect = 6e-06
 Identities = 27/157 (17%), Positives = 46/157 (29%), Gaps = 10/157 (6%)

Query: 6   ETKWQKDAADQNFDYMFKLLIIGNSSVGKTSFL--FRYADDSFTSAFVSTVGIDFKVKTV 63
                 DA  +    +  + + G +  GK+SF+   R   +    A  + V      +  
Sbjct: 41  TNSAISDALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP 100

Query: 64  FRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS 123
           ++H     +  WD  G          Y          YD     S T  +     I    
Sbjct: 101 YKHPNIPNVVFWDLPGIGSTNFPPDTYL--EKMKFYEYDFFIIISATRFKKNDIDIAKAI 158

Query: 124 WD-NAQVILVGNKCDM-----EDERVISFERGKHLAE 154
                +   V  K D       D    +F++ K L +
Sbjct: 159 SMMKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQD 195

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 42.0 bits (97), Expect = 1e-05
 Identities = 20/174 (11%), Positives = 51/174 (29%), Gaps = 20/174 (11%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTV----GIDFKVKTVFRHDKRVKLQIWDTAGQE 81
           I+G  +VGK++ L     +      +S                  +   +    DT G  
Sbjct: 10  IVGRPNVGKSTLL-----NKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLH 64

Query: 82  RYRTITTAYYRGAMGFILMYD------VTNEESFTSIQDWITQIKTYSWDNAQVILVGNK 135
                             + D      V     +T   + +            ++ V   
Sbjct: 65  MEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAP-VILAVNKV 123

Query: 136 CDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSES 189
            +++++  +        ++   ++    SA+  +NV    + +  I+   + E+
Sbjct: 124 DNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNV----DTIAAIVRKHLPEA 173

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 41.9 bits (97), Expect = 1e-05
 Identities = 23/169 (13%), Positives = 48/169 (28%), Gaps = 19/169 (11%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKT----VFRHDKRVKLQIWDTAG-- 79
           ++G  + GK+S L      + T A        F   +    V    +  +  + D  G  
Sbjct: 6   LVGYPNAGKSSLL-----AAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGII 60

Query: 80  -----QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNA-QVILVG 133
                 +        +       + + D  +E   T                    ++  
Sbjct: 61  EGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVAL 120

Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           NK D+ +E  +  +         G+     SA     +  + E L  ++
Sbjct: 121 NKVDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALV 167

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

 Score = 40.1 bits (92), Expect = 7e-05
 Identities = 20/166 (12%), Positives = 46/166 (27%), Gaps = 9/166 (5%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG------ 79
           + G S+VGK+SF+    +    +   S  G    +     +D+   + +           
Sbjct: 28  LAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKS 87

Query: 80  QERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME 139
           +          Y      +       +       D +   +   +    VI++  K D  
Sbjct: 88  EREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKI 147

Query: 140 DERVISF---ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
            +           + L      E    S++        +  +  +I
Sbjct: 148 PKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI 193

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 39.0 bits (89), Expect = 2e-04
 Identities = 18/165 (10%), Positives = 44/165 (26%), Gaps = 13/165 (7%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT 85
           I+G  +VGK++ L     ++     V+ +    +           + +            
Sbjct: 10  IVGKPNVGKSTLL-----NNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLH 64

Query: 86  ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS 145
                    M   +   + +  +   + D            A+ +               
Sbjct: 65  KPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGNK 124

Query: 146 FERGKHLAESL--------GVEFFETSAKDNVNVKGVFERLVDII 182
            +  K+  E++          E    SA D   V  +   L+ ++
Sbjct: 125 LDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALM 169

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 38.2 bits (87), Expect = 3e-04
 Identities = 21/170 (12%), Positives = 51/170 (30%), Gaps = 10/170 (5%)

Query: 19  DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTA 78
           D   ++   G S+ GK+S L    +    +    T G    +      D +  + +    
Sbjct: 14  DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYG 73

Query: 79  GQ-------ERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVIL 131
                     +++     Y         +  + +        D          + A ++L
Sbjct: 74  YAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVL 133

Query: 132 VGNKCDM---EDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL 178
           +     +     +  ++  R   LA +  V+    S+     V  + ++L
Sbjct: 134 LTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKL 183

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 36.3 bits (82), Expect = 0.001
 Identities = 18/165 (10%), Positives = 40/165 (24%), Gaps = 2/165 (1%)

Query: 26  IIGNSSVGKTSFL--FRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY 83
           I+G  +VGK++          +             +    +       +         + 
Sbjct: 5   IVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQD 64

Query: 84  RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERV 143
                              V              +        + V  +      E+ R 
Sbjct: 65  IISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVDTILVANKAENLRE 124

Query: 144 ISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDKMSE 188
              E    L      E    SA+ N+N+  + E ++  + +K  +
Sbjct: 125 FEREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEEKGLD 169

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 35.8 bits (81), Expect = 0.001
 Identities = 23/180 (12%), Positives = 46/180 (25%), Gaps = 20/180 (11%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT 85
             G S+VGK++ ++R             V           H            G  +   
Sbjct: 5   FAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPKEVQ 64

Query: 86  ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWD----------------NAQV 129
                           ++         +     IK +                   +   
Sbjct: 65  ERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPT 124

Query: 130 ILVGNKCDMEDERVISF----ERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDIICDK 185
           I+  NK D             E+ +     +   F   SAK   N++ +  R+ ++I ++
Sbjct: 125 IVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER 184

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 35.0 bits (79), Expect = 0.004
 Identities = 23/174 (13%), Positives = 47/174 (27%), Gaps = 14/174 (8%)

Query: 22  FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE 81
            K+ I+G  +VGK++      +    +      G               K    DTAG  
Sbjct: 9   IKVAIVGRPNVGKSTLFNAILNKE-RALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLR 67

Query: 82  RYRTITTAYYRGAMGFILMYDVTN--------EESFTSIQDWITQIKTYSWDNAQVILVG 133
           R   +          + ++  +          + +    +                ++V 
Sbjct: 68  RKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVF 127

Query: 134 NKCDMEDERVISFERGKHLAESL-----GVEFFETSAKDNVNVKGVFERLVDII 182
           NK D+   R   ++    L               TSA    N+  + + +    
Sbjct: 128 NKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAY 181

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 34.9 bits (79), Expect = 0.004
 Identities = 24/169 (14%), Positives = 47/169 (27%), Gaps = 15/169 (8%)

Query: 26  IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY-- 83
           ++G  SVGK++ L   +      A      +   +  V   D R    + D  G      
Sbjct: 6   LVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDGR-SFVMADLPGLIEGAH 64

Query: 84  ----------RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVG 133
                     R I        +  +   +  +        +               I+V 
Sbjct: 65  QGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVA 124

Query: 134 NKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDII 182
           NK DM +         + L +      F  SA     ++ +   + + +
Sbjct: 125 NKMDMPEAAENLEAFKEKLTD--DYPVFPISAVTREGLRELLFEVANQL 171

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	221
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.93
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.93
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.92
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.92
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.91
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.9
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.9
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.9
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.89
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.89
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.88
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.88
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.87
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.86
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.86
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.84
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.83
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.81
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.79
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.78
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.77
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.74
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.71
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.7
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.69
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.68
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.67
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.58
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.5
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.49
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.45
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.37
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.27
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.26
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.24
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.12
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.1
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.94
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.74
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.55
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.32
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.28
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.27
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.2
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.13
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.1
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.09
d1okkd2	207	GTPase domain of the signal recognition particle r	98.06
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.0
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.97
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.8
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.6
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.53
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.51
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.51
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.42
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.37
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.35
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.34
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.29
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.27
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	97.26
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.26
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.25
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.23
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.23
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.23
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.22
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.2
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.15
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.14
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.12
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.12
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.12
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.06
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.02
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.02
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.02
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.02
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.01
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.96
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.94
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.93
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.92
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.92
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.92
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.91
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.91
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.91
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.89
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.88
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.87
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.86
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.84
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.83
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.82
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.81
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.81
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.76
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.75
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.75
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.74
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.74
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.73
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.73
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.73
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.72
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.7
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.69
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.65
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.65
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.63
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.6
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.59
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.58
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.57
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.56
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.55
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.52
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.47
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.44
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.42
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.41
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.4
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.38
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.37
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.37
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.32
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.3
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.21
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.17
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.11
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.03
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.0
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.94
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.94
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.93
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.9
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.81
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.81
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.72
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.69
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.67
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.67
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.65
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.55
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.4
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.25
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.23
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.2
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.16
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.16
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.08
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.07
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.05
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.03
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.01
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.95
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.94
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.88
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.84
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	94.82
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.73
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.67
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.62
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.6
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.54
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.44
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.4
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.4
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.38
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.21
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.13
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.12
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	94.08
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.0
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.96
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.94
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.94
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.91
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.88
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.8
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.56
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	93.47
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.85
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.81
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.79
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.56
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.45
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.27
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.77
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.54
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.98
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.73
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	90.44
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	89.78
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.88
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	88.49
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	87.37
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	86.83
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	86.24
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	85.9
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	85.81
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.95
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	84.94
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	84.22
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.03
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.56
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	83.35
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	83.04
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	83.03
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	82.84
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	82.72
d5mdha1	154	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	80.43
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.24
d1mlda1	144	Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 982	80.15

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=5.3e-38  Score=227.93  Aligned_cols=169  Identities=85%  Similarity=1.364  Sum_probs=158.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ++++.+||+|+|++|||||||+++|.++.+...+.++.+.+.....+......+.+.+|||||++.+..++..+++.+|+
T Consensus         1 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~   80 (169)
T d3raba_           1 NFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMG   80 (169)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCE
T ss_pred             CCCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            46889999999999999999999999999988899999999999999888888999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||+++++++..+..|+..+........|+++++||+|+.+...++.++.+.+++.+++++++|||++|.|++++|+
T Consensus        81 ~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~  160 (169)
T d3raba_          81 FILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFE  160 (169)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECccchhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            99999999999999999988888777777899999999999988888888999999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q psy2300         177 RLVDIICDK  185 (221)
Q Consensus       177 ~i~~~~~~~  185 (221)
                      +|++.+.++
T Consensus       161 ~l~~~i~ek  169 (169)
T d3raba_         161 RLVDVICEK  169 (169)
T ss_dssp             HHHHHHHTC
T ss_pred             HHHHHHhhC
Confidence            999988753

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1e-37  Score=226.79  Aligned_cols=169  Identities=41%  Similarity=0.760  Sum_probs=158.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ++++.+||+|+|.+|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++++++
T Consensus         1 ~~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~   80 (171)
T d2ew1a1           1 DYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANA   80 (171)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccce
Confidence            47889999999999999999999999999988889999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|+|++++.++..+..|...+........|++||+||+|+.+...++.++++.+++.+++++++|||++|.||+++|.
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~  160 (171)
T d2ew1a1          81 LILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFL  160 (171)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEeeecccchhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHH
Confidence            99999999999999999999998877777899999999999988778888899999999999999999999999999999


Q ss_pred             HHHHHHHHh
Q psy2300         177 RLVDIICDK  185 (221)
Q Consensus       177 ~i~~~~~~~  185 (221)
                      +|++.+++.
T Consensus       161 ~l~~~l~~~  169 (171)
T d2ew1a1         161 DLACRLISE  169 (171)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999887664

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.1e-37  Score=224.38  Aligned_cols=165  Identities=38%  Similarity=0.735  Sum_probs=148.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+|+|.+|||||||+++|..+.+...+.++.+..........++..+.+.+||++|++.+..++..++.++|++++
T Consensus         2 y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~   81 (167)
T d1z08a1           2 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAIL   81 (167)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEE
T ss_pred             ceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEE
Confidence            78999999999999999999999999999999999999999999888889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |||++++++|+++..|+..+........|+++++||+|+...+.++.++.+.+++.+++++++|||++|.||+++|.+|+
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~  161 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLC  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             EEeCCchhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHH
Confidence            99999999999999999887666556889999999999988888999999999999999999999999999999999999


Q ss_pred             HHHHH
Q psy2300         180 DIICD  184 (221)
Q Consensus       180 ~~~~~  184 (221)
                      +.+.+
T Consensus       162 ~~i~~  166 (167)
T d1z08a1         162 KRMIE  166 (167)
T ss_dssp             HHHHC
T ss_pred             HHHhh
Confidence            98764

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8e-37  Score=221.06  Aligned_cols=165  Identities=38%  Similarity=0.770  Sum_probs=155.6

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      +++.+||+|+|.+|+|||||+++|.++.+...+.++.+.++.......++..+.+.+||++|++.+..++..+++.+|++
T Consensus         1 ~~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~   80 (166)
T d1z0fa1           1 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGA   80 (166)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEE
T ss_pred             CcEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEE
Confidence            57899999999999999999999999999888888889889999999999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      ++|+|+++.+++..+..|+..+........|+++++||+|+........++++.+++..++++++|||++|.||+++|++
T Consensus        81 ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~  160 (166)
T d1z0fa1          81 LMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLE  160 (166)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEeccCchHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999999999998877788999999999999888888888999999999999999999999999999999


Q ss_pred             HHHHH
Q psy2300         178 LVDII  182 (221)
Q Consensus       178 i~~~~  182 (221)
                      |++.+
T Consensus       161 i~~~i  165 (166)
T d1z0fa1         161 AAKKI  165 (166)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98875

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.2e-37  Score=222.09  Aligned_cols=163  Identities=37%  Similarity=0.673  Sum_probs=152.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|||||||+++|..+.+...+.+|.+.+........++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            48999999999999999999999999889999999888988998899999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ||++++.+++++..|+..+.... .+.|++||+||+|+.+.+.++.++++.+++.++++|+++||++|.||+++|++|++
T Consensus        82 ~d~~~~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~  160 (164)
T d1z2aa1          82 FSTTDRESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAE  160 (164)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHH
T ss_pred             EeccchhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHH
Confidence            99999999999999999987654 57999999999999888888889999999999999999999999999999999998


Q ss_pred             HHHH
Q psy2300         181 IICD  184 (221)
Q Consensus       181 ~~~~  184 (221)
                      .+++
T Consensus       161 ~~lq  164 (164)
T d1z2aa1         161 KHLQ  164 (164)
T ss_dssp             HHHC
T ss_pred             HHhC
Confidence            8763

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-36  Score=221.45  Aligned_cols=171  Identities=37%  Similarity=0.719  Sum_probs=159.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+++.+||+|+|.+|||||||+++|..+.+...+.++.+.+.....+..+...+.+.+||++|++.+..++..++..+|+
T Consensus         1 ~~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~   80 (174)
T d2bmea1           1 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   80 (174)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             CccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCE
Confidence            37899999999999999999999999999989899999988888888888889999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +++|+|.++++++..+..|+..+......+.|+++|+||+|+....+....+...++..+++++++|||++|.|++++|+
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~  160 (174)
T d2bmea1          81 ALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFV  160 (174)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEecccchhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHH
Confidence            99999999999999999999999887778899999999999988788888888999999999999999999999999999


Q ss_pred             HHHHHHHHhhc
Q psy2300         177 RLVDIICDKMS  187 (221)
Q Consensus       177 ~i~~~~~~~~~  187 (221)
                      ++++.+.++..
T Consensus       161 ~l~~~i~~~~~  171 (174)
T d2bmea1         161 QCARKILNKIE  171 (174)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999987754

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.3e-36  Score=223.13  Aligned_cols=173  Identities=49%  Similarity=0.913  Sum_probs=161.6

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      ++++.+||+|+|++|||||||+++|..+.+...+.++.+.++....+.+.+..+.+.+|||+|++.+..++..+++.+++
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            57899999999999999999999999999989999999999998899999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||+++++++..+..|...+........|+++|+||+|+.+...+..++...++...++.++++||++|.||+++|+
T Consensus        82 ~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~  161 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFL  161 (194)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEEEeCcchhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHH
Confidence            99999999999999999998888877778899999999999998888999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhccc
Q psy2300         177 RLVDIICDKMSES  189 (221)
Q Consensus       177 ~i~~~~~~~~~~~  189 (221)
                      +|++.+.+.....
T Consensus       162 ~l~~~i~~~~~~~  174 (194)
T d2bcgy1         162 TMARQIKESMSQQ  174 (194)
T ss_dssp             HHHHHHHHHCCHH
T ss_pred             HHHHHHHHHhhhc
Confidence            9999988765443

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-36  Score=219.52  Aligned_cols=170  Identities=38%  Similarity=0.745  Sum_probs=154.9

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEE
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGF   97 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~v   97 (221)
                      +++.+||+|+|.+|||||||+++|.++.+...+.++.+.+.....+..++..+.+.+||++|++.+..++..+++.+|++
T Consensus         1 ~~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~   80 (175)
T d2f9la1           1 YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGA   80 (175)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeE
Confidence            47899999999999999999999999999888888888888888888999999999999999999999999999999999


Q ss_pred             EEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          98 ILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        98 i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |+|||.+++.+|..+..|+..+.....++.|++||+||+|+.+.+....+....+....+.++++|||++|+|++++|++
T Consensus        81 i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~  160 (175)
T d2f9la1          81 LLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKN  160 (175)
T ss_dssp             EEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEEECCCcccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHH
Confidence            99999999999999999999998887788999999999999877777777788888888999999999999999999999


Q ss_pred             HHHHHHHhhc
Q psy2300         178 LVDIICDKMS  187 (221)
Q Consensus       178 i~~~~~~~~~  187 (221)
                      +++.+.+...
T Consensus       161 l~~~i~~~~~  170 (175)
T d2f9la1         161 ILTEIYRIVS  170 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999877654

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-36  Score=219.15  Aligned_cols=170  Identities=40%  Similarity=0.741  Sum_probs=153.9

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +|.+||+|+|++|||||||++++.++.+...+.++.+.+.........+..+.+.+||++|++.+..++..++..+|+++
T Consensus         1 ~y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (173)
T d2a5ja1           1 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   80 (173)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEE
T ss_pred             CeeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEE
Confidence            37799999999999999999999999998888888888888888888888899999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      +|+|++++.+|+.+..|+..+......+.|++||+||+|+...+....++...+++.+++++++|||++|.||+++|.+|
T Consensus        81 lv~d~~~~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i  160 (173)
T d2a5ja1          81 LVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINT  160 (173)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             EEEeecChHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999999998888777889999999999998888888899999999999999999999999999999999


Q ss_pred             HHHHHHhhcc
Q psy2300         179 VDIICDKMSE  188 (221)
Q Consensus       179 ~~~~~~~~~~  188 (221)
                      ++.+.++..+
T Consensus       161 ~~~i~~~~~~  170 (173)
T d2a5ja1         161 AKEIYRKIQQ  170 (173)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHc
Confidence            9998877643

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-36  Score=220.50  Aligned_cols=169  Identities=31%  Similarity=0.503  Sum_probs=151.8

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      |+...+||+|+|.+|||||||+++|+.+.+...+.++.. +.....+..++..+.+.+||++|.+.+..++..+++.+|+
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~   80 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   80 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccc-cceeeEeccCCeeeeeeccccccccccccccchhhcccee
Confidence            456789999999999999999999999998887777654 4455677888899999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +++|||++++.+|..+..|+..+... ...+.|++||+||+|+.+.+....++.+.+++.++++|++|||++|.||+++|
T Consensus        81 ~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f  160 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAF  160 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             eeeecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999999887654 34688999999999998877888899999999999999999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy2300         176 ERLVDIICDKM  186 (221)
Q Consensus       176 ~~i~~~~~~~~  186 (221)
                      +.|++.+.++.
T Consensus       161 ~~l~~~i~k~~  171 (173)
T d2fn4a1         161 EQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999987764

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.6e-36  Score=220.85  Aligned_cols=170  Identities=56%  Similarity=0.979  Sum_probs=130.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .+++.+||+|+|.+|||||||+++|+.+.+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++++|+
T Consensus         2 ~~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~   81 (173)
T d2fu5c1           2 TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMG   81 (173)
T ss_dssp             CCSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSE
T ss_pred             cccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCE
Confidence            46889999999999999999999999999888888999999999999999999999999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      +|+|||++++.++..+..|...+......+.|+++|+||.|+........++...++...++++++|||++|+||+++|+
T Consensus        82 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~  161 (173)
T d2fu5c1          82 IMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFF  161 (173)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHH
T ss_pred             EEEEEECCChhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999999999999999999877778899999999999988777888888899999999999999999999999999


Q ss_pred             HHHHHHHHhh
Q psy2300         177 RLVDIICDKM  186 (221)
Q Consensus       177 ~i~~~~~~~~  186 (221)
                      +|++.+..++
T Consensus       162 ~l~~~i~~k~  171 (173)
T d2fu5c1         162 TLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999987765

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.9e-36  Score=217.84  Aligned_cols=164  Identities=24%  Similarity=0.377  Sum_probs=133.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .|||+|+|++|||||||+++|.+..+.. ..++.+ ......+.+++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         1 ifKi~lvG~~~vGKTsLi~~~~~~~~~~-~~~~~~-~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv   78 (168)
T d2gjsa1           1 VYKVLLLGAPGVGKSALARIFGGVEDGP-EAEAAG-HTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIV   78 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHTC----------C-EEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEE
T ss_pred             CeEEEEECCCCcCHHHHHHHHhCCccCC-cCCeee-eeecceeeccccccceeeeecccccccceecccchhhhhhhcee
Confidence            3899999999999999999999887533 333333 34455677888999999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      ||++++.+++++..|+..+.... ....|+++|+||+|+.+.+.++..+.+.+++.++++|++|||++|.|++++|++|+
T Consensus        79 ~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1          79 YSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHH
T ss_pred             ccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHH
Confidence            99999999999999999887654 45689999999999988888889999999999999999999999999999999999


Q ss_pred             HHHHHhh
Q psy2300         180 DIICDKM  186 (221)
Q Consensus       180 ~~~~~~~  186 (221)
                      +.+..++
T Consensus       159 ~~i~~~~  165 (168)
T d2gjsa1         159 RQIRLRR  165 (168)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9887665

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.6e-36  Score=216.47  Aligned_cols=165  Identities=29%  Similarity=0.528  Sum_probs=149.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+++|++|||||||++++.++.+...+.++.+..+ ...+..++..+.+.+||++|.+.+..++..+++.+|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-ccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            469999999999999999999999998888888876544 4556778889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCC-CHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNV-NVKGVFER  177 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~~l~~~  177 (221)
                      |||++++.+|.++..|+..+.+.. ..+.|+++++||+|+.+.+.++.+++..+++.++++|++|||+++. ||+++|+.
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~  161 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHD  161 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHH
Confidence            999999999999999999986653 4689999999999999888899999999999999999999999886 99999999


Q ss_pred             HHHHHHHh
Q psy2300         178 LVDIICDK  185 (221)
Q Consensus       178 i~~~~~~~  185 (221)
                      |++.+.++
T Consensus       162 l~~~i~~~  169 (169)
T d1x1ra1         162 LVRVIRQQ  169 (169)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99988764

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=100.00  E-value=3.4e-36  Score=218.11  Aligned_cols=164  Identities=35%  Similarity=0.583  Sum_probs=146.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+|+|.+|||||||+++|+.+.|...+.+|.+..+. ..+.+++..+.+.+||++|.+.+..++..+++.+|++++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCccccccc-cccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            4689999999999999999999999998888898876654 556778899999999999999999899999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||++++.+++.+..|+..+.+.. ..+.|+++|+||+|+.+.+.++.++.+.+++.+++++++|||++|.|++++|++|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l  161 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999998886653 4689999999999998888889999999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      ++.+..
T Consensus       162 ~~~i~~  167 (168)
T d1u8za_         162 MREIRA  167 (168)
T ss_dssp             HHHHHT
T ss_pred             HHHHHC
Confidence            988754

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.3e-36  Score=216.72  Aligned_cols=161  Identities=43%  Similarity=0.778  Sum_probs=151.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      |||+|+|.+|||||||+++|.++.+...+.++.+..........++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            69999999999999999999999999999999998888888888888999999999999999999999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      |++++.++..+..|+..+......+.|+++|+||+|+.+.+.+..++...+++.++++|++|||++|.||+++|++|+++
T Consensus        81 d~~~~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~  160 (164)
T d1yzqa1          81 DITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAA  160 (164)
T ss_dssp             ETTCHHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccccccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHh
Confidence            99999999999999998877766789999999999998878888889999999999999999999999999999999886


Q ss_pred             H
Q psy2300         182 I  182 (221)
Q Consensus       182 ~  182 (221)
                      +
T Consensus       161 l  161 (164)
T d1yzqa1         161 L  161 (164)
T ss_dssp             S
T ss_pred             h
Confidence            5

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.3e-35  Score=214.83  Aligned_cols=163  Identities=36%  Similarity=0.688  Sum_probs=153.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+|+|.+|||||||+++|..+.+...+.++.+..+.......+.....+.+||++|++.+..++..++..++++|+
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~   82 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAII   82 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEE
Confidence            46899999999999999999999999999999999989988888888888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |||++++++|+.+..|...+........|+++|+||+|+.+.+.+..++.+.++..++++|++|||++|.||+++|.+|+
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~  162 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEIS  162 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            99999999999999999888887778999999999999988888899999999999999999999999999999999998


Q ss_pred             HHH
Q psy2300         180 DII  182 (221)
Q Consensus       180 ~~~  182 (221)
                      +.+
T Consensus       163 ~~i  165 (167)
T d1z0ja1         163 RRI  165 (167)
T ss_dssp             HHC
T ss_pred             HhC
Confidence            865

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.4e-36  Score=222.46  Aligned_cols=172  Identities=45%  Similarity=0.909  Sum_probs=153.4

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC----------eEEEEEEEeCCCccccccc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD----------KRVKLQIWDTAGQERYRTI   86 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~g~~~~~~~   86 (221)
                      ++++.+||+|+|++|||||||+++|+++.+...+.++.+.++....+..++          ..+.+.+||++|++.+..+
T Consensus         1 ~~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~   80 (186)
T d2f7sa1           1 DYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSL   80 (186)
T ss_dssp             CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHH
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHH
Confidence            478999999999999999999999999999888888888877766665433          3467999999999999999


Q ss_pred             chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEec
Q psy2300          87 TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSA  165 (221)
Q Consensus        87 ~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  165 (221)
                      +..+++++|++|+|||++++.+++.+..|+..+.... ....|++||+||+|+...+.++.+++..+++.+++++++|||
T Consensus        81 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sa  160 (186)
T d2f7sa1          81 TTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSA  160 (186)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBT
T ss_pred             HHHHHhcCCEEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeC
Confidence            9999999999999999999999999999988775543 457889999999999888889999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhcc
Q psy2300         166 KDNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       166 ~~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                      ++|+||+++|++|++.+.++..+
T Consensus       161 k~~~~i~e~f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         161 ATGQNVEKAVETLLDLIMKRMEQ  183 (186)
T ss_dssp             TTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999877644

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-35  Score=215.19  Aligned_cols=164  Identities=35%  Similarity=0.511  Sum_probs=149.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+|+|++|||||||+++|+++.+...+.+|.+..+ ...+.+++..+.+.+||++|.+.+..++..++..+|++++
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYIL   81 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEE
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhh
Confidence            568999999999999999999999999888888888765 4567788899999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||++++++|..+..|+..+.... ..+.|+++|+||+|+...+.++.++++.+++.++++|++|||++|.||+++|+.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~l  161 (167)
T d1xtqa1          82 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRI  161 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHH
Confidence            999999999999999998886543 4678999999999998888889999999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      ++.+.+
T Consensus       162 i~~~~K  167 (167)
T d1xtqa1         162 ILEAEK  167 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHhcC
Confidence            987653

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-35  Score=217.40  Aligned_cols=167  Identities=32%  Similarity=0.550  Sum_probs=144.7

Q ss_pred             hcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          15 DQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        15 ~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ..|....+||+|+|.+|||||||+++|+.+.|...+.+|.+. .........+..+.+.+||++|++.+..++..++..+
T Consensus         3 ~~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~-~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a   81 (185)
T d2atxa1           3 HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMT   81 (185)
T ss_dssp             SCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCC-CEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTC
T ss_pred             CCCCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCceee-eeeEEEeeCCceEEeecccccccchhhhhhhhccccc
Confidence            345567899999999999999999999999998888888863 4455666777889999999999999999999999999


Q ss_pred             cEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhC-CeE
Q psy2300          95 MGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLG-VEF  160 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~  160 (221)
                      |++++|||++++++|+++.. |+..+... ..+.|+++|+||+|+.+            .+.++.++...+++.++ +.|
T Consensus        82 ~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~  160 (185)
T d2atxa1          82 DVFLICFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCY  160 (185)
T ss_dssp             SEEEEEEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCE
T ss_pred             ceeeeccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEE
Confidence            99999999999999998766 55555544 46899999999999854            45678889999999988 689


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ++|||++|.||+++|+.+++.++
T Consensus       161 ~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         161 VECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEecCCCCcCHHHHHHHHHHHHc
Confidence            99999999999999999998874

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.2e-35  Score=212.23  Aligned_cols=167  Identities=46%  Similarity=0.815  Sum_probs=145.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      -++..+||+|+|+++||||||+++|+.+.+... +.++.+.++....+..++..+.+.+|||+|++.+..++..+++.+|
T Consensus         2 ~~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d   81 (170)
T d2g6ba1           2 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAH   81 (170)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCS
T ss_pred             CCceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCc
Confidence            378899999999999999999999999987544 4555677888888888999999999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++++|+|.++++++..+..|+..+........|+++|+||.|+.+...++.+++..+++..++++++|||++|.||+++|
T Consensus        82 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f  161 (170)
T d2g6ba1          82 ALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAF  161 (170)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             eeEEEecCCcccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHH
Confidence            99999999999999999998888877766789999999999999888899999999999999999999999999999999


Q ss_pred             HHHHHHHH
Q psy2300         176 ERLVDIIC  183 (221)
Q Consensus       176 ~~i~~~~~  183 (221)
                      ++|++.+.
T Consensus       162 ~~l~~~i~  169 (170)
T d2g6ba1         162 TAIAKELK  169 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            99998875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-35  Score=215.02  Aligned_cols=164  Identities=38%  Similarity=0.708  Sum_probs=153.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..|||+|+|.+|||||||+++|..+.+...+.++.+.++...........+.+.+||++|++.+..++..+++.+|++++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   84 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEE
Confidence            46899999999999999999999999999999999999888888888889999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |+|.++++++.++..|...+.....++.|+++|+||+|+.+.+.++.++.+.++...+++|++|||++|.||+++|++|+
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~  164 (170)
T d1r2qa_          85 VYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIA  164 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             EeccchhhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHH
Confidence            99999999999999999998777778899999999999988888999999999999999999999999999999999998


Q ss_pred             HHHH
Q psy2300         180 DIIC  183 (221)
Q Consensus       180 ~~~~  183 (221)
                      +.+.
T Consensus       165 ~~i~  168 (170)
T d1r2qa_         165 KKLP  168 (170)
T ss_dssp             HTSC
T ss_pred             HHHh
Confidence            7654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.4e-35  Score=212.82  Aligned_cols=165  Identities=33%  Similarity=0.578  Sum_probs=144.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..|||+|+|.+|||||||+++|+.+.+...+.++.+ ......+.+++..+.+.+||++|.+.+...+..++..+|++++
T Consensus         4 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   82 (171)
T d2erya1           4 EKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLL   82 (171)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEE
Confidence            358999999999999999999999998888888876 4455667788899999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||.+++.++..+..|+..+... .....|++||+||+|+...+.+..++...+++.++++|++|||++|.||+++|..|
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l  162 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHEL  162 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHH
Confidence            99999999999999998876544 34679999999999998888889999999999999999999999999999999999


Q ss_pred             HHHHHHh
Q psy2300         179 VDIICDK  185 (221)
Q Consensus       179 ~~~~~~~  185 (221)
                      ++.+.++
T Consensus       163 ~~~i~k~  169 (171)
T d2erya1         163 VRVIRKF  169 (171)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9988654

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.5e-36  Score=217.19  Aligned_cols=164  Identities=27%  Similarity=0.487  Sum_probs=145.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.|||+|+|.+|||||||+++|+.+.+...+.+|.+..+. .....++..+.+.+||++|.+.+...+..++..+|++++
T Consensus         1 n~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~~-~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   79 (171)
T d2erxa1           1 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   79 (171)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeeccc-cceeeccccceeccccccccccccccccccccceeEEEE
Confidence            3689999999999999999999999998888888875543 345678888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC--CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS--WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |||+++++++.++..|+..+....  ..+.|+++|+||+|+...+.++.++++.+++.+++++++|||++|.||+++|+.
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~  159 (171)
T d2erxa1          80 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  159 (171)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            999999999999999988875532  367899999999999888888999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q psy2300         178 LVDIICD  184 (221)
Q Consensus       178 i~~~~~~  184 (221)
                      |++.+.+
T Consensus       160 l~~~~~~  166 (171)
T d2erxa1         160 LLNLEKR  166 (171)
T ss_dssp             HHHTCCS
T ss_pred             HHHHHHH
Confidence            9876543

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.3e-34  Score=209.33  Aligned_cols=165  Identities=53%  Similarity=0.939  Sum_probs=146.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+++|.+|||||||+++|+.+.+...+.++.+.++....+..++..+.+.+|||||++.+..++..+++.+|++++
T Consensus         1 ~~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (166)
T d1g16a_           1 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIIL   80 (166)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEE
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLV  179 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~  179 (221)
                      |||.+++.+++.+..|...+........|++++++|.|+.. +....++...++..+++++++|||++|+|++++|++|+
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~  159 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLA  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHH
Confidence            99999999999999998888888778899999999999855 44567889999999999999999999999999999999


Q ss_pred             HHHHHh
Q psy2300         180 DIICDK  185 (221)
Q Consensus       180 ~~~~~~  185 (221)
                      +.+.++
T Consensus       160 ~~i~~k  165 (166)
T d1g16a_         160 KLIQEK  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            988775

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9e-35  Score=210.57  Aligned_cols=164  Identities=30%  Similarity=0.469  Sum_probs=143.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|||||||+++|+.+.|...+.||.+..+... ...++..+.+.+||++|.+.+. .+..++..++++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~~-~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQ-ATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEEE-EEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceecccccc-ccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            48999999999999999999999999999999988776544 4467788999999999998764 456688999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCC-HHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVN-VKGVFERL  178 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g-i~~l~~~i  178 (221)
                      ||++++.++..+..|...+.. ....+.|+++|+||+|+...+.++.++++.+++.++++|++|||++|.| |+++|..|
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l  159 (168)
T d2atva1          80 YDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL  159 (168)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHH
T ss_pred             cccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHH
Confidence            999999999999987766544 3346899999999999988788899999999999999999999999985 99999999


Q ss_pred             HHHHHHhh
Q psy2300         179 VDIICDKM  186 (221)
Q Consensus       179 ~~~~~~~~  186 (221)
                      ++.+.+++
T Consensus       160 ~~~i~~~r  167 (168)
T d2atva1         160 CREVRRRR  167 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99988765

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-34  Score=210.40  Aligned_cols=162  Identities=30%  Similarity=0.550  Sum_probs=140.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      ..||+|+|++|||||||+++|..+.+...+.+|.+ .........++..+.+.+||++|++.+..++..+++.+|++|+|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            47999999999999999999999999888888876 44456667788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhCC-eEEEEecC
Q psy2300         101 YDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLGV-EFFETSAK  166 (221)
Q Consensus       101 ~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~  166 (221)
                      ||++++++|+++.. |...+... .++.|++||+||+|+.+.            +.++.++.+.+++.++. +|++|||+
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAk  159 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAK  159 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTT
T ss_pred             cccchhHHHHHHHHHHHHHHHHh-CCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCC
Confidence            99999999998877 44545444 468999999999998642            45778888999999884 89999999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDIICD  184 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~~  184 (221)
                      +|.||+++|+.+++.+++
T Consensus       160 t~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         160 TKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             TCTTHHHHHHHHHHHHHC
T ss_pred             CCcCHHHHHHHHHHHHhC
Confidence            999999999999988763

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.7e-35  Score=211.42  Aligned_cols=163  Identities=34%  Similarity=0.589  Sum_probs=147.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+|+|.+|||||||+++|+++.+...+.++.+ +........++..+.+.+||++|++.+...+..+++.+|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            368999999999999999999999998888888776 4455667778888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |||++++.++.++..|...+.... ..+.|++||+||+|+...+.+..++...+++.+++++++|||++|.||+++|++|
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHH
Confidence            999999999999999998886644 4678999999999998877888899999999999999999999999999999999


Q ss_pred             HHHHH
Q psy2300         179 VDIIC  183 (221)
Q Consensus       179 ~~~~~  183 (221)
                      ++.+.
T Consensus       161 ~~~i~  165 (167)
T d1kaoa_         161 VRQMN  165 (167)
T ss_dssp             HHHHH
T ss_pred             HHHHc
Confidence            88764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.5e-34  Score=209.76  Aligned_cols=163  Identities=38%  Similarity=0.671  Sum_probs=150.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+|+|++|||||||+++|..+.+...+.++.+.++....+..++..+.+.+||++|.+.+..++..++..+|++++
T Consensus         2 ~~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1ek0a_           2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             cEEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEE
Confidence            36899999999999999999999999999999999998988899999999999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC---CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED---ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      |||.+++.++.++..|+..+........|+++++||+|+.+   .+.+..++.+.+++.++++|++|||++|.||+++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~  161 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFL  161 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHH
T ss_pred             EEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHH
Confidence            99999999999999999888777777899999999999743   467888999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         177 RLVDII  182 (221)
Q Consensus       177 ~i~~~~  182 (221)
                      .|++.+
T Consensus       162 ~i~~~i  167 (170)
T d1ek0a_         162 GIGEKI  167 (170)
T ss_dssp             HHHTTS
T ss_pred             HHHHHh
Confidence            887643

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.9e-36  Score=216.05  Aligned_cols=162  Identities=28%  Similarity=0.576  Sum_probs=141.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|+|||||+++|+.+.+...+.+|.+.++....+..++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIM   82 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhc
Confidence            58999999999999999999999999999999999999888888888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERLVD  180 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  180 (221)
                      ||++++++|+++..|+..+.+.. .+.|+++|+||+|+......  ++...++...+++|++|||++|.|++++|++|++
T Consensus        83 ~d~~~~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_          83 FDVTSRVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             EETTSGGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             cccccccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999999998886654 58999999999999765443  3455677888999999999999999999999999


Q ss_pred             HHHHh
Q psy2300         181 IICDK  185 (221)
Q Consensus       181 ~~~~~  185 (221)
                      .+.+.
T Consensus       160 ~l~~~  164 (170)
T d1i2ma_         160 KLIGD  164 (170)
T ss_dssp             HHHTC
T ss_pred             HHccC
Confidence            88643

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-34  Score=207.32  Aligned_cols=163  Identities=34%  Similarity=0.610  Sum_probs=145.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+|+|.+|||||||+++|..+.|...+.++.+..+ ...+..++..+.+.+||++|++.+..++..+++.+|++++
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            368999999999999999999999999888888887554 4555677888999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-CCeEEEEecCCCCCHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAESL-GVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |||++++.+|+++..|+..+.+. ..++.|++||+||+|+........++...+++.. ++++++|||++|.|++++|++
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~  160 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYD  160 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHH
Confidence            99999999999999999887654 3468999999999999888888888888888875 689999999999999999999


Q ss_pred             HHHHHH
Q psy2300         178 LVDIIC  183 (221)
Q Consensus       178 i~~~~~  183 (221)
                      |++.+.
T Consensus       161 l~~~i~  166 (167)
T d1c1ya_         161 LVRQIN  166 (167)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            998764

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.8e-34  Score=209.73  Aligned_cols=161  Identities=29%  Similarity=0.514  Sum_probs=139.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|||||||+++|..+.|...+.+|.+.. .......++..+.+.+||++|++.+..++..+++.+|++++|
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~~-~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   81 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDN-YAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   81 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEE-EEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceeee-cceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecc
Confidence            5899999999999999999999999988888888744 445566677889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhC-CeEEEEecC
Q psy2300         101 YDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLG-VEFFETSAK  166 (221)
Q Consensus       101 ~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~  166 (221)
                      ||+++++||+++.. |...+.. ...+.|+++|+||+|+.+            ...++.++.+.++..++ ++|++|||+
T Consensus        82 ~d~~~~~Sf~~~~~~~~~~~~~-~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk  160 (191)
T d2ngra_          82 FSVVSPSSFENVKEKWVPEITH-HCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSAL  160 (191)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHH-HCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTT
T ss_pred             cccchHHHHHHHHHHHHHHHhh-cCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCC
Confidence            99999999999987 5554544 347899999999999853            34578888999998875 699999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q psy2300         167 DNVNVKGVFERLVDIIC  183 (221)
Q Consensus       167 ~~~gi~~l~~~i~~~~~  183 (221)
                      +|.||+++|+.++..++
T Consensus       161 ~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         161 TQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             TCTTHHHHHHHHHHHHT
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            99999999999887664

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.1e-34  Score=206.18  Aligned_cols=163  Identities=32%  Similarity=0.577  Sum_probs=145.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.|||+|+|++|||||||+++|+++.++..+.++.+..+... +...+..+.+.+||++|.+.+...+..++..++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQ-VVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEE-EEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccc-eeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            358999999999999999999999999888888888766555 4567788999999999999999999999999999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFERL  178 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i  178 (221)
                      |+|++++.+|+.+..|+..+.... ..+.|+++|+||+|+.. +.+..++++.+++.++++|++|||++|+||+++|.+|
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i  159 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHH
Confidence            999999999999999999987654 35789999999999964 4567788999999999999999999999999999999


Q ss_pred             HHHHHH
Q psy2300         179 VDIICD  184 (221)
Q Consensus       179 ~~~~~~  184 (221)
                      ++.+.+
T Consensus       160 ~~~i~~  165 (166)
T d1ctqa_         160 VREIRQ  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            998764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-33  Score=206.37  Aligned_cols=167  Identities=44%  Similarity=0.776  Sum_probs=152.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      -+.+||+|+|.+|||||||+++|.++.+...+.++.+.......+..++..+.+.+|||+|++.+..++..++.++|+++
T Consensus         5 ~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   84 (177)
T d1x3sa1           5 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVI   84 (177)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEE
T ss_pred             cceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEE
Confidence            46799999999999999999999999999998999988888888888989999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      +|+|++++.++..+..|+..+.... ....|+++++||.|... +.+...+.+.+++.++++++++||++|+|++++|++
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~  163 (177)
T d1x3sa1          85 LVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEE  163 (177)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEEECCCccccccchhhhhhhcccccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHH
Confidence            9999999999999999999986654 45688999999999754 567788899999999999999999999999999999


Q ss_pred             HHHHHHHhh
Q psy2300         178 LVDIICDKM  186 (221)
Q Consensus       178 i~~~~~~~~  186 (221)
                      |++.+.+..
T Consensus       164 l~~~l~~~p  172 (177)
T d1x3sa1         164 LVEKIIQTP  172 (177)
T ss_dssp             HHHHHHTSG
T ss_pred             HHHHHccCc
Confidence            999988664

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-33  Score=205.62  Aligned_cols=165  Identities=22%  Similarity=0.366  Sum_probs=140.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCC---cccccccchhhccCCc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAG---QERYRTITTAYYRGAM   95 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g---~~~~~~~~~~~~~~~d   95 (221)
                      ..|||+|+|.+|+|||||+++|++..+.. ...++.+.+.....+.+++..+.+.+||+++   ++.+  ++..+++.+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            46999999999999999999999876543 3455667777778888899999999999765   4443  5667889999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ++|+|||++++.+++++..|...+.... ..+.|++||+||+|+.+.+.++.++++.++..++++|++|||++|.|++++
T Consensus        80 ~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~  159 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKEL  159 (172)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHH
T ss_pred             eeeeeecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHH
Confidence            9999999999999999999988886543 468999999999999888888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhh
Q psy2300         175 FERLVDIICDKM  186 (221)
Q Consensus       175 ~~~i~~~~~~~~  186 (221)
                      |++|++.+..++
T Consensus       160 f~~l~~~i~~rr  171 (172)
T d2g3ya1         160 FEGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHcc
Confidence            999999887654

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.4e-33  Score=205.56  Aligned_cols=167  Identities=38%  Similarity=0.693  Sum_probs=132.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCC-eEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHD-KRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +.+||+|+|++|||||||+++|+++.+...+.++.+.+.........+ ..+.+.+||++|++.+...+..+++.+++++
T Consensus         1 n~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (175)
T d1ky3a_           1 NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCV   80 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEE
Confidence            368999999999999999999999998888888887776666665443 3477899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCC-cccCHHHHHHHHHHhC-CeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDE-RVISFERGKHLAESLG-VEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~-~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  172 (221)
                      +|||++++.+|..+..|+..+....    ....|+++++||+|+.+. +.++.++.+.+++.++ ++|++|||++|.||+
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~  160 (175)
T d1ky3a_          81 LVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVD  160 (175)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHH
T ss_pred             EEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHH
Confidence            9999999999999999998875432    357899999999999764 3467788889998886 689999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q psy2300         173 GVFERLVDIICDKM  186 (221)
Q Consensus       173 ~l~~~i~~~~~~~~  186 (221)
                      ++|++|++.++++.
T Consensus       161 e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         161 TAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999888764

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.3e-33  Score=202.29  Aligned_cols=164  Identities=34%  Similarity=0.668  Sum_probs=144.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ++.+||+|+|.+|||||||+++|..+.+...+.++.+..........++..+.+.+||++|...+...+..++..+++++
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   83 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCL   83 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEE
Confidence            46799999999999999999999999998889999998888888888988999999999999988888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCCCCCHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKDNVNVKG  173 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~~  173 (221)
                      +++|.+++.++..+..|+..+....    ..+.|+++|+||+|+.+ +.+..++.+.+++..+ ++|++|||++|.||++
T Consensus        84 ~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e  162 (174)
T d1wmsa_          84 LTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAA  162 (174)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHH
T ss_pred             EEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHH
Confidence            9999999999999999998875532    35789999999999965 5678889999998875 7999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         174 VFERLVDIIC  183 (221)
Q Consensus       174 l~~~i~~~~~  183 (221)
                      +|++|++.++
T Consensus       163 ~f~~l~~~il  172 (174)
T d1wmsa_         163 AFEEAVRRVL  172 (174)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2e-33  Score=206.11  Aligned_cols=163  Identities=28%  Similarity=0.548  Sum_probs=140.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      +..+||+|+|.+|||||||+++|+.+.|...+.+|.+. .....+..++..+.+.+||++|++.+..++..+++.+|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~-~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCC-EEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceee-ceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            46799999999999999999999999998888888874 44566777889999999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCC------------cccCHHHHHHHHHHhC-CeEEEEe
Q psy2300          99 LMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDE------------RVISFERGKHLAESLG-VEFFETS  164 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~S  164 (221)
                      +|||++++++|+++.. |...+... ..+.|++||+||+|+...            ......+...+++.++ ++|++||
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~S  160 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  160 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             eeeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcC
Confidence            9999999999999977 55555544 468999999999997433            3345567778888877 6999999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q psy2300         165 AKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       165 a~~~~gi~~l~~~i~~~~~  183 (221)
                      |++|.||+++|+.|++.++
T Consensus       161 Ak~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         161 ALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TTTCTTHHHHHHHHHHHHS
T ss_pred             CCCCcCHHHHHHHHHHHHc
Confidence            9999999999999998774

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4.1e-33  Score=201.08  Aligned_cols=160  Identities=38%  Similarity=0.718  Sum_probs=143.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-cchhhccCCcEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-ITTAYYRGAMGFI   98 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-~~~~~~~~~d~vi   98 (221)
                      +.+||+|+|.+|||||||+++|..+.+...+.++.+................+.+||++|...+.. .+..++.++|++|
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            368999999999999999999999999999999998888888888888999999999999876654 4677899999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhhC-CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC---CCCHHHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTYS-WDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD---NVNVKGV  174 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~~l  174 (221)
                      +|||++++++|+.+..|+..+.+.. ..+.|++||+||+|+.+.+.++.++++.+++.+++++++|||++   +.||+++
T Consensus        81 lv~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~  160 (165)
T d1z06a1          81 FVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAI  160 (165)
T ss_dssp             EEEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHH
T ss_pred             EEEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHH
Confidence            9999999999999999999887654 46899999999999988888899999999999999999999997   5699999


Q ss_pred             HHHHH
Q psy2300         175 FERLV  179 (221)
Q Consensus       175 ~~~i~  179 (221)
                      |++|+
T Consensus       161 F~~lA  165 (165)
T d1z06a1         161 FMTLA  165 (165)
T ss_dssp             HHHHC
T ss_pred             HHHhC
Confidence            99873

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=4.8e-33  Score=204.28  Aligned_cols=166  Identities=34%  Similarity=0.667  Sum_probs=146.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|.+|||||||+++|+++.+...+.+|.+.++........+..+.+.+||++|...+...+..++..+|++++|
T Consensus         2 ~~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   81 (184)
T d1vg8a_           2 LLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLV   81 (184)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEe
Confidence            48999999999999999999999999999999999999999998888889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhC----CCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH-hCCeEEEEecCCCCCHHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYS----WDNAQVILVGNKCDMEDERVISFERGKHLAES-LGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~----~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      +|.+++.++..+..|+..+....    ..+.|+++|+||+|+.+. .+..++...++.. .++++++|||++|.||+++|
T Consensus        82 ~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f  160 (184)
T d1vg8a_          82 FDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAF  160 (184)
T ss_dssp             EETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHH
T ss_pred             ecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHH
Confidence            99999999999999998775542    246799999999999764 4555666666654 46899999999999999999


Q ss_pred             HHHHHHHHHhhc
Q psy2300         176 ERLVDIICDKMS  187 (221)
Q Consensus       176 ~~i~~~~~~~~~  187 (221)
                      ++|++.+.++..
T Consensus       161 ~~l~~~i~~~~~  172 (184)
T d1vg8a_         161 QTIARNALKQET  172 (184)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccc
Confidence            999998877654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=7.7e-33  Score=202.28  Aligned_cols=164  Identities=24%  Similarity=0.456  Sum_probs=140.5

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      ..||+|+|.+|||||||+++|+.+.|+..+.++.+. ........++..+.+.+||++|++.+...+..+++.+|++++|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-cccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            479999999999999999999999998888887763 4445566788889999999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC------------CcccCHHHHHHHHHHhCC-eEEEEecCC
Q psy2300         101 YDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMED------------ERVISFERGKHLAESLGV-EFFETSAKD  167 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~  167 (221)
                      ||+++++||+.+..|..........+.|+++|+||+|+..            .+.++.++...+++.++. .|++|||++
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~  160 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQ  160 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTT
T ss_pred             eecccCCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCC
Confidence            9999999999988754443333346899999999999843            456788899999999875 899999999


Q ss_pred             CC-CHHHHHHHHHHHHHHh
Q psy2300         168 NV-NVKGVFERLVDIICDK  185 (221)
Q Consensus       168 ~~-gi~~l~~~i~~~~~~~  185 (221)
                      |. |++++|+.+++.++++
T Consensus       161 ~~n~i~~~F~~~~~~~l~k  179 (179)
T d1m7ba_         161 SENSVRDIFHVATLACVNK  179 (179)
T ss_dssp             BHHHHHHHHHHHHHHHHTC
T ss_pred             CCcCHHHHHHHHHHHHhcC
Confidence            98 5999999999988753

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=9.5e-31  Score=190.27  Aligned_cols=162  Identities=20%  Similarity=0.331  Sum_probs=134.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      +.+||+++|++|||||||+++|.++.+.. ..++.+.. ....+.+++..+.+.+||++|+..+     .+++.+|++|+
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~-~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~il   76 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQ-YKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIF   76 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEE-EEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCcccee-EEEEeecCceEEEEEEeeccccccc-----ccccccceeEE
Confidence            46999999999999999999999999754 34444443 3566778999999999999998754     37888999999


Q ss_pred             EEECCChhhHHHHHHHHHHHHhhC---CCCCcEEEEEeCCCCCC--CcccCHHHHHHHHHH-hCCeEEEEecCCCCCHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQIKTYS---WDNAQVILVGNKCDMED--ERVISFERGKHLAES-LGVEFFETSAKDNVNVKG  173 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~l~~~~---~~~~p~ivv~nK~Dl~~--~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~  173 (221)
                      |||++++.||+++..|+..+....   ....|+++|+||.|+..  .+.++.++...++.. .++.|++|||++|.|+++
T Consensus        77 Vfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  156 (175)
T d2bmja1          77 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDR  156 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHH
T ss_pred             EeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHH
Confidence            999999999999999988876543   35679999999988743  456777788888655 467999999999999999


Q ss_pred             HHHHHHHHHHHhhcc
Q psy2300         174 VFERLVDIICDKMSE  188 (221)
Q Consensus       174 l~~~i~~~~~~~~~~  188 (221)
                      +|..+++.+.+.+.+
T Consensus       157 ~F~~l~~~i~~~~~~  171 (175)
T d2bmja1         157 VFQEVAQKVVTLRKQ  171 (175)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhh
Confidence            999999988877643

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.97  E-value=8.2e-32  Score=194.09  Aligned_cols=155  Identities=21%  Similarity=0.403  Sum_probs=126.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|||||||+++|..+.+...+.+|.+..+..  +..+  .+.+.+||+||++.+...+..++..++++++|
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   77 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYM   77 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeee--eeee--eEEEEEeeccccccccccccccccccchhhcc
Confidence            5899999999999999999999999888888888765543  3333  47899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHH-----HHHhCCeEEEEecCCCCCHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHL-----AESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      ||++++.++.....|+..+.. ...++.|++||+||+|+.+...  ..+..+.     +...+++++++||++|+|++++
T Consensus        78 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~  155 (164)
T d1zd9a1          78 VDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALD--EKELIEKMNLSAIQDREICCYSISCKEKDNIDIT  155 (164)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             cccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhh--HHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHH
Confidence            999999999999887776643 3356899999999999965432  2222222     2233568999999999999999


Q ss_pred             HHHHHHH
Q psy2300         175 FERLVDI  181 (221)
Q Consensus       175 ~~~i~~~  181 (221)
                      |+||++.
T Consensus       156 ~~~l~~~  162 (164)
T d1zd9a1         156 LQWLIQH  162 (164)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHc
Confidence            9998874

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.97  E-value=6.6e-31  Score=189.41  Aligned_cols=157  Identities=22%  Similarity=0.350  Sum_probs=123.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+|+|++|||||||+++|.+..+ ..+.+|.+....  .+..  .++.+.+||++|++.+...+..++..++++++|
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIK--TLEH--RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEEE--EEEE--TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-CcccceEeeeee--eccc--cccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            58999999999999999999998875 445666664433  3333  347899999999999999999999999999999


Q ss_pred             EECCChhhHHHHHHHHHHH-HhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHHHH
Q psy2300         101 YDVTNEESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       101 ~d~~~~~s~~~~~~~~~~l-~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      +|+++..++.....++... ......+.|++||+||+|+.+....  ++.....     ...++.+++|||++|+|++++
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~  154 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPG  154 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHH
T ss_pred             eecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHH
Confidence            9999999998887755544 3333468999999999999765433  3322222     122457999999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         175 FERLVDIICD  184 (221)
Q Consensus       175 ~~~i~~~~~~  184 (221)
                      |+||++.+.+
T Consensus       155 ~~~l~~~i~~  164 (165)
T d1ksha_         155 IDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHc
Confidence            9999998765

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.97  E-value=7.4e-31  Score=191.05  Aligned_cols=159  Identities=19%  Similarity=0.284  Sum_probs=123.5

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAM   95 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d   95 (221)
                      .+.+..+||+++|++|||||||+++|.++.+. ...++.+.+  ...+...  ++.+.+||++|++.+...+..++..+|
T Consensus        11 ~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~-~~~~~~~~~--~~~i~~~--~~~~~i~d~~g~~~~~~~~~~~~~~~~   85 (176)
T d1fzqa_          11 SAPDQEVRILLLGLDNAGKTTLLKQLASEDIS-HITPTQGFN--IKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTD   85 (176)
T ss_dssp             SCCSSCEEEEEEESTTSSHHHHHHHHCCSCCE-EEEEETTEE--EEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCS
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHhcCCCC-cceeeeeee--EEEeccC--CeeEeEeeccccccchhHHHHHhhccc
Confidence            44567899999999999999999999998863 333444433  3334333  478999999999999999999999999


Q ss_pred             EEEEEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHH-----HHHhCCeEEEEecCCCC
Q psy2300          96 GFILMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHL-----AESLGVEFFETSAKDNV  169 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~  169 (221)
                      ++++|||+++..++..+..|+..+... ...+.|++|++||+|+.+...  .....+.     +....+.+++|||++|+
T Consensus        86 ~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  163 (176)
T d1fzqa_          86 ILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGE  163 (176)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCT
T ss_pred             eeEEeeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCC
Confidence            999999999999999998877665433 345789999999999965432  2222221     12234579999999999


Q ss_pred             CHHHHHHHHHHH
Q psy2300         170 NVKGVFERLVDI  181 (221)
Q Consensus       170 gi~~l~~~i~~~  181 (221)
                      |++++|+||++.
T Consensus       164 gv~e~~~~l~~~  175 (176)
T d1fzqa_         164 GVQDGMNWVCKN  175 (176)
T ss_dssp             THHHHHHHHHHT
T ss_pred             CHHHHHHHHHhc
Confidence            999999999874

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.97  E-value=2.5e-31  Score=194.69  Aligned_cols=163  Identities=20%  Similarity=0.340  Sum_probs=124.0

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcE
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMG   96 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~   96 (221)
                      .....+||+++|.+|||||||+++|....+. ...+|.+.....  ...  ..+.+.+||++|++.+..++..++..+|+
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~~t~~~~~~~--~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~~~   87 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVET--LSY--KNLKLNVWDLGGQTSIRPYWRCYYADTAA   87 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEE-EECSSTTCCEEE--EEE--TTEEEEEEEEC----CCTTGGGTTTTEEE
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCC-ccccccceEEEE--Eee--CCEEEEEEecccccccchhHHhhhcccee
Confidence            4567899999999999999999999988763 344555544333  322  34789999999999999999999999999


Q ss_pred             EEEEEECCChhhHHHHHHHHHHHH-hhCCCCCcEEEEEeCCCCCCCcccCHHHHHHH-----HHHhCCeEEEEecCCCCC
Q psy2300          97 FILMYDVTNEESFTSIQDWITQIK-TYSWDNAQVILVGNKCDMEDERVISFERGKHL-----AESLGVEFFETSAKDNVN  170 (221)
Q Consensus        97 vi~v~d~~~~~s~~~~~~~~~~l~-~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~g  170 (221)
                      +++|+|++++.++.....|+..+. .....+.|++|++||+|+.+..  +..+....     +...++.+++|||++|+|
T Consensus        88 ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~g  165 (182)
T d1moza_          88 VIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGAL--SASEVSKELNLVELKDRSWSIVASSAIKGEG  165 (182)
T ss_dssp             EEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCC--CHHHHHHHTTTTTCCSSCEEEEEEBGGGTBT
T ss_pred             EEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeecccccc--CHHHHHHHHHHHHHhhCCCEEEEEECCCCCC
Confidence            999999999999998888776653 3335679999999999996542  22332221     223346799999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q psy2300         171 VKGVFERLVDIICDKM  186 (221)
Q Consensus       171 i~~l~~~i~~~~~~~~  186 (221)
                      ++++|++|++.+.++.
T Consensus       166 v~e~~~~l~~~i~~~~  181 (182)
T d1moza_         166 ITEGLDWLIDVIKEEQ  181 (182)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcC
Confidence            9999999999987754

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.96  E-value=2.8e-30  Score=187.55  Aligned_cols=157  Identities=21%  Similarity=0.359  Sum_probs=121.1

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|++|||||||+++|.++.+. ...+|.+....  ....  ..+.+.+||+||.+.+...+..++..+++++
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~-~~~~t~~~~~~--~~~~--~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   84 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVE--TVTY--KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLI   84 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCE-EEEEETTEEEE--EEEE--TTEEEEEEEESCCGGGHHHHGGGTTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCC-CccceeeeeEE--Eeec--cceeeEEecCCCcchhhhHHHhhhcccceEE
Confidence            34699999999999999999999988753 33444443332  2222  3478999999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHH-----HHHHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKH-----LAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|+++.+++..+..|+..... ......|++|++||+|+++...  ..+...     .+...++.+++|||++|+||+
T Consensus        85 ~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~  162 (173)
T d1e0sa_          85 FVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--PHEIQEKLGLTRIRDRNWYVQPSCATSGDGLY  162 (173)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--HHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHH
Confidence            99999999999999887666533 3346899999999999965432  222222     122235679999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      ++|+||.+.+
T Consensus       163 e~~~~l~~~~  172 (173)
T d1e0sa_         163 EGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            9999998753

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.95  E-value=5.6e-28  Score=172.57  Aligned_cols=156  Identities=17%  Similarity=0.305  Sum_probs=120.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEE
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY  101 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~  101 (221)
                      +||+|+|++|||||||+++|+++.+...+......   .  ...+...+.+.+||++|...+...+..++..++++++++
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   75 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN---V--ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV   75 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCC---E--EEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeE---E--EEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEE
Confidence            58999999999999999999998875543333221   1  122345578999999999999888999999999999999


Q ss_pred             ECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccC---HHHHHHHHHHhCCeEEEEecCCCCCHHHHHHH
Q psy2300         102 DVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVIS---FERGKHLAESLGVEFFETSAKDNVNVKGVFER  177 (221)
Q Consensus       102 d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  177 (221)
                      |..++.++..+..|...+... .....|+++++||.|+.+.....   ......+++..++++++|||++|+|++++|++
T Consensus        76 d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          76 DSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             ETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             EecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            999999999988877666433 24578999999999986543221   11112233344678999999999999999999


Q ss_pred             HHHHH
Q psy2300         178 LVDII  182 (221)
Q Consensus       178 i~~~~  182 (221)
                      |.+.+
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98763

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.94  E-value=2.6e-26  Score=166.72  Aligned_cols=157  Identities=17%  Similarity=0.309  Sum_probs=115.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+|+|.+|||||||+++|.+..+.. ..++.+...  .....  ..+.+.+||+++.+.....+..++..+++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~-~~~~~~~~~--~~~~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i   87 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVH-TSPTIGSNV--EEIVI--NNTRFLMWDIGGQESLRSSWNTYYTNTEFVI   87 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEE-EECCSCSSC--EEEEE--TTEEEEEEECCC----CGGGHHHHTTCCEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCc-cccccceeE--EEEee--cceEEEEeccccccccccchhhhhccceeee
Confidence            356999999999999999999999988643 233333222  22222  2367899999999999999999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHH-----HHhCCeEEEEecCCCCCHH
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLA-----ESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~  172 (221)
                      +|+|.++..++.....+....... ...+.|+++|+||+|++....  ..+.....     ...+++++++||++|+|++
T Consensus        88 ~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~  165 (177)
T d1zj6a1          88 VVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLC  165 (177)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             eecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHH
Confidence            999999999988877655544322 246899999999999966543  22222222     2234679999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      ++|+||.+.+
T Consensus       166 e~~~~L~~~l  175 (177)
T d1zj6a1         166 QGLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999875

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.93  E-value=2.2e-25  Score=160.09  Aligned_cols=161  Identities=24%  Similarity=0.381  Sum_probs=120.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFIL   99 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~   99 (221)
                      ..+||+++|.+|||||||+++|+++.+.. ..++.+...  .....  ..+.+.+||.++.+.+...+...+...+++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~-~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVT-TIPTIGFNV--ETVTY--KNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   78 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCC-CCCCSSEEE--EEEEE--TTEEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcc-eecccceee--eeecc--CceEEEEeeccccccccccchhhhhhhhhhhh
Confidence            45899999999999999999999998743 334444322  22222  34678999999999999989999999999999


Q ss_pred             EEECCChhhHHHHHHHHHH-HHhhCCCCCcEEEEEeCCCCCCCcccC---HHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300         100 MYDVTNEESFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMEDERVIS---FERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       100 v~d~~~~~s~~~~~~~~~~-l~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      ++|+.+..++.....+... +........|+++++||.|+.+.....   ......++...++++++|||++|.|++++|
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~  158 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  158 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            9999988877777764444 433345678999999999996643321   111122333445789999999999999999


Q ss_pred             HHHHHHHHHh
Q psy2300         176 ERLVDIICDK  185 (221)
Q Consensus       176 ~~i~~~~~~~  185 (221)
                      ++|.+.+.++
T Consensus       159 ~~l~~~l~~k  168 (169)
T d1upta_         159 EWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhC
Confidence            9999877543

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.93  E-value=1.9e-25  Score=162.53  Aligned_cols=156  Identities=19%  Similarity=0.158  Sum_probs=105.5

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeE--EEEEEeCCeEEEEEEEeCCCccccc--------ccch
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFK--VKTVFRHDKRVKLQIWDTAGQERYR--------TITT   88 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~   88 (221)
                      .+.-.|+|+|.+|+|||||+++|++..... .....+++..  .......  +..+.+|||||.....        ....
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~-~~~~~~tt~~~~~~~~~~~--~~~~~~~DtpG~~~~~~~~~~~~~~~~~   79 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAP-ISPRPQTTRKRLRGILTEG--RRQIVFVDTPGLHKPMDALGEFMDQEVY   79 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSC-CCSSSCCCCSCEEEEEEET--TEEEEEEECCCCCCCCSHHHHHHHHHHH
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCcee-ecccCCcccccccceeeee--eeeeeecccccccccccccchhcccccc
Confidence            455679999999999999999999876422 1222222222  2223233  3578999999964332        2223


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKD  167 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  167 (221)
                      .++..+|++++|+|++++..... ..|...+... ..+.|+++|+||+|+....   .+....+....+ ..++++||++
T Consensus        80 ~~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~~~-~~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~  154 (178)
T d1wf3a1          80 EALADVNAVVWVVDLRHPPTPED-ELVARALKPL-VGKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALD  154 (178)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHH-HHHHHHHGGG-TTTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTC
T ss_pred             cccccccceeeeechhhhhcccc-cchhhheecc-ccchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCC
Confidence            45688999999999988654332 3344555433 3578999999999986542   223344444444 4789999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDII  182 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~  182 (221)
                      |.|+++++++|++.+
T Consensus       155 ~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         155 ERQVAELKADLLALM  169 (178)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhC
Confidence            999999999887643

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.92  E-value=2.1e-24  Score=154.18  Aligned_cols=151  Identities=20%  Similarity=0.288  Sum_probs=116.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  102 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d  102 (221)
                      ||+++|.+|||||||+++|.++.+. .+.++.+.+..  ..  ......+.+||++|...+...+..++..++++++++|
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~-~~~~t~~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d   76 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPTSE--EL--AIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVD   76 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCC-CCCCCCSCEEE--EE--CCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-eeeceeeEeEE--Ee--ccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeecc
Confidence            7999999999999999999998864 45565554433  23  2234568899999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhh-CCCCCcEEEEEeCCCCCCCcccCHHHHHHHHH------------HhCCeEEEEecCCCC
Q psy2300         103 VTNEESFTSIQDWITQIKTY-SWDNAQVILVGNKCDMEDERVISFERGKHLAE------------SLGVEFFETSAKDNV  169 (221)
Q Consensus       103 ~~~~~s~~~~~~~~~~l~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~------------~~~~~~~~~Sa~~~~  169 (221)
                      .++..++.....|....... ...+.|+++++||.|+....  ...+......            ...+.+++|||++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          77 AADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAV--SEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCC--CHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             ccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccC--CHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            99999888887766665443 35688999999999986532  3333322221            112468999999999


Q ss_pred             CHHHHHHHHHH
Q psy2300         170 NVKGVFERLVD  180 (221)
Q Consensus       170 gi~~l~~~i~~  180 (221)
                      |++++|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999864

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.92  E-value=1.3e-24  Score=160.44  Aligned_cols=160  Identities=22%  Similarity=0.189  Sum_probs=124.0

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|..|||||||+++|..+.+  .+.||.|.....  +  ....+.+.+||++|++.+...|..++..+++++++
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~--~~~pTiG~~~~~--~--~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP--F--DLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTS--SCCCCCSCEEEE--E--ECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCC--CCCceeeEEEEE--E--eccceeeeeccccccccccccccccccccceeeEe
Confidence            58999999999999999999998886  356888865433  3  23457799999999999999999999999999999


Q ss_pred             EECCChh-----------hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC----------------cccCHHHHHHHH
Q psy2300         101 YDVTNEE-----------SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDE----------------RVISFERGKHLA  153 (221)
Q Consensus       101 ~d~~~~~-----------s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~----------------~~~~~~~~~~~~  153 (221)
                      +|.++..           .++....|...+......+.|+++++||+|+...                ...+......+.
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  155 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFI  155 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHH
Confidence            9987643           4566777888887766679999999999997211                111222222222


Q ss_pred             HH----------hCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         154 ES----------LGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       154 ~~----------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ..          ..+.+++|||++|.||+++|+.|.+.+.++.
T Consensus       156 ~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~n  198 (200)
T d2bcjq2         156 LKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  198 (200)
T ss_dssp             HHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHHh
Confidence            11          1245789999999999999999999888764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.91  E-value=8.2e-25  Score=160.89  Aligned_cols=156  Identities=21%  Similarity=0.277  Sum_probs=114.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|..|||||||+++|....+++.     +.  ....+  +...+.+.+||++|++.+..++..+++.++++++|
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~-----~~--~~~~~--~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGT-----GI--VETHF--TFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCC-----SE--EEEEE--EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCc-----cE--EEEEE--EeeeeeeeeeccccccccccchhhcccCCceeeeE
Confidence            58999999999999999999988766443     22  12222  33447899999999999999999999999999999


Q ss_pred             EECCChhhH-----------HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCC---------------cccCHHHHHHHH-
Q psy2300         101 YDVTNEESF-----------TSIQDWITQIKTYSWDNAQVILVGNKCDMEDE---------------RVISFERGKHLA-  153 (221)
Q Consensus       101 ~d~~~~~s~-----------~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~---------------~~~~~~~~~~~~-  153 (221)
                      +|.++..++           +....|...+......+.|+++++||+|+...               ......+...+. 
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQ  152 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHH
Confidence            999886655           33444666665555678999999999985110               111122221111 


Q ss_pred             ----HH------hCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         154 ----ES------LGVEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       154 ----~~------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                          ..      ..+.+++|||++|+||+++|+.+.+.+.++
T Consensus       153 ~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         153 CQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             HHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence                11      124678999999999999999999888764

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.91  E-value=2e-25  Score=159.61  Aligned_cols=151  Identities=21%  Similarity=0.240  Sum_probs=106.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc--------ccchhhcc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR--------TITTAYYR   92 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~--------~~~~~~~~   92 (221)
                      +||+++|.+|||||||+++|++..... ...+..........+...+  ..+.+||++|.....        .....++.
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~   79 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIE   79 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccC--ceeeeccccccccccccchhHHHHHHHHHHH
Confidence            799999999999999999999876432 2222222222233333333  578899999943322        11234578


Q ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHH
Q psy2300          93 GAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVK  172 (221)
Q Consensus        93 ~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (221)
                      .+|++++++|..+..++.....|...+.... .+.|+++|+||+|+......-       .+..+.+++++||++|.|++
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~  151 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVD  151 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHH
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHH
Confidence            8999999999998877777666655555443 579999999999985432211       11234689999999999999


Q ss_pred             HHHHHHHHHH
Q psy2300         173 GVFERLVDII  182 (221)
Q Consensus       173 ~l~~~i~~~~  182 (221)
                      +++++|.+.+
T Consensus       152 ~L~~~l~~~l  161 (161)
T d2gj8a1         152 VLRNHLKQSM  161 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhhC
Confidence            9999998753

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.91  E-value=8.8e-24  Score=153.80  Aligned_cols=158  Identities=13%  Similarity=0.121  Sum_probs=106.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----cc---ccchhhccCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YR---TITTAYYRGAM   95 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~---~~~~~~~~~~d   95 (221)
                      .|+|+|.+|||||||+|+|++........+..+......... ......+.+|||||...    ..   ......+..++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVE-VSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTR   81 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEE-CSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceee-ecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhh
Confidence            489999999999999999998764333222323333332222 23345688999999421    11   12234568899


Q ss_pred             EEEEEEECCCh--hhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          96 GFILMYDVTNE--ESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        96 ~vi~v~d~~~~--~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      ++++++|....  ..+.....|+...... ..+.|+++|+||+|+...+.  .+...+.....+.+++++||++|.|+++
T Consensus        82 ~~~~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          82 VLLYVLDAADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVDLLEEEA--VKALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEEETTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCTTSCHHH--HHHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhhcccccccccchhhhhhhhhccccc-cchhhhhhhhhhhhhhhHHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            99999998653  2333333444332111 13689999999999966443  2345555566788999999999999999


Q ss_pred             HHHHHHHHHHH
Q psy2300         174 VFERLVDIICD  184 (221)
Q Consensus       174 l~~~i~~~~~~  184 (221)
                      |++.|.+.+..
T Consensus       159 L~~~i~~~l~~  169 (180)
T d1udxa2         159 LKEALHALVRS  169 (180)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhh
Confidence            99998887743

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.90  E-value=2e-23  Score=152.00  Aligned_cols=157  Identities=21%  Similarity=0.292  Sum_probs=112.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|.+|||||||+++|.+..+.. ..++.+.+....  ..++  ..+.+||+.+...+...+..+....++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~-~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-HVPTLHPTSEEL--TIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIV   85 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCSCEEE--EETT--EEEEEEEECC----CCGGGGGGGGCSEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc-eecccccceeEE--Eecc--cccccccccchhhhhhHHhhhhcccceee
Confidence            356899999999999999999999988643 345555444433  3333  46789999999988888999999999999


Q ss_pred             EEEECCChhhHHHHHHHHHHHHh-hCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-----------------CCeE
Q psy2300          99 LMYDVTNEESFTSIQDWITQIKT-YSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-----------------GVEF  160 (221)
Q Consensus        99 ~v~d~~~~~s~~~~~~~~~~l~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----------------~~~~  160 (221)
                      +++|..+...+.....+...... ....+.|+++++||.|++..  ....+........                 ++++
T Consensus        86 ~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (186)
T d1f6ba_          86 FLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  163 (186)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             eeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEE
Confidence            99999999888877764444433 33568999999999998654  2334443333221                 2468


Q ss_pred             EEEecCCCCCHHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ++|||++|+|++|+|+||++.+
T Consensus       164 ~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         164 FMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEeCCCCCCHHHHHHHHHHhh
Confidence            9999999999999999998653

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.90  E-value=5.1e-24  Score=153.82  Aligned_cols=158  Identities=18%  Similarity=0.177  Sum_probs=100.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc---------cccccchhhccC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE---------RYRTITTAYYRG   93 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~~~~~~   93 (221)
                      +|+|+|++|||||||+++|++.... ......+.+..............+.+||++|..         .+......++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~   80 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKA-IVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIRE   80 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcc-eecccCceeeccccccccccccccccccccceeeeecccccccccccccccccc
Confidence            6999999999999999999986532 122233333332222233344678899999831         112233445688


Q ss_pred             CcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Q psy2300          94 AMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKG  173 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  173 (221)
                      +|+++++++.++...... ..++..+...   +.|+++|+||+|+...  ...+...++.+.....++++||++|.|+++
T Consensus        81 ad~i~~~~~~~~~~~~~~-~~~~~~l~~~---~~pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~i~iSAk~g~gid~  154 (171)
T d1mkya1          81 ADLVLFVVDGKRGITKED-ESLADFLRKS---TVDTILVANKAENLRE--FEREVKPELYSLGFGEPIPVSAEHNINLDT  154 (171)
T ss_dssp             CSEEEEEEETTTCCCHHH-HHHHHHHHHH---TCCEEEEEESCCSHHH--HHHHTHHHHGGGSSCSCEECBTTTTBSHHH
T ss_pred             CcEEEEeecccccccccc-cccccccccc---cccccccchhhhhhhh--hhhHHHHHHHhcCCCCeEEEecCCCCCHHH
Confidence            999999999887554433 3455555554   7899999999998532  112222233222334789999999999999


Q ss_pred             HHHHHHHHHHHhhc
Q psy2300         174 VFERLVDIICDKMS  187 (221)
Q Consensus       174 l~~~i~~~~~~~~~  187 (221)
                      ++++|.+.+.++..
T Consensus       155 L~~~i~~~l~e~~~  168 (171)
T d1mkya1         155 MLETIIKKLEEKGL  168 (171)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHhCCCCCC
Confidence            99999998876654

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.90  E-value=5.3e-23  Score=149.55  Aligned_cols=161  Identities=16%  Similarity=0.130  Sum_probs=105.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCcccc-----ceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVS-----TVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGA   94 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   94 (221)
                      ..++|+++|++|+|||||+|+|++.........     ..+.+..............+.++|++|+..+.......+..+
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~   83 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADII   83 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSC
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhc
Confidence            468999999999999999999996432111111     112112111111112235688999999998888888889999


Q ss_pred             cEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--HHHHHHHHH----hCCeEEEEecCCC
Q psy2300          95 MGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--ERGKHLAES----LGVEFFETSAKDN  168 (221)
Q Consensus        95 d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~----~~~~~~~~Sa~~~  168 (221)
                      |++++|+|+.++...+.. .....+...   +.|+++|+||+|+.+......  +....+...    .+.+++++||++|
T Consensus        84 d~~ilv~d~~~g~~~~~~-~~~~~~~~~---~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g  159 (179)
T d1wb1a4          84 DLALIVVDAKEGPKTQTG-EHMLILDHF---NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTG  159 (179)
T ss_dssp             CEEEEEEETTTCSCHHHH-HHHHHHHHT---TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTC
T ss_pred             cccccccccccccchhhh-hhhhhhhhc---CCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCC
Confidence            999999999986433332 223333333   799999999999966432211  112222222    1358999999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDIICD  184 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~~  184 (221)
                      +|+++|++.|.+.+-+
T Consensus       160 ~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         160 FGVDELKNLIITTLNN  175 (179)
T ss_dssp             TTHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHhcCCc
Confidence            9999999999887654

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=1.8e-23  Score=154.45  Aligned_cols=159  Identities=19%  Similarity=0.257  Sum_probs=109.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILM  100 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v  100 (221)
                      .+||+++|.+|||||||+++|.   +...+.||.|....  .+..  ....+.+||++|++.+...+..+++.+++++++
T Consensus         2 ~iKivllG~~~vGKTsll~r~~---f~~~~~pTiG~~~~--~~~~--~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR---IIHGQDPTKGIHEY--DFEI--KNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH---HHHSCCCCSSEEEE--EEEE--TTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHh---cCCCCCCeeeeEEE--EEee--eeeeeeeecccceeeecccccccccccceeEEE
Confidence            5899999999999999999994   44567788885443  3333  446799999999999999999999999999999


Q ss_pred             EECCChh----------hHHHHHHHHHH-HHhhCCCCCcEEEEEeCCCCCCC----------------cccCHHHHHHHH
Q psy2300         101 YDVTNEE----------SFTSIQDWITQ-IKTYSWDNAQVILVGNKCDMEDE----------------RVISFERGKHLA  153 (221)
Q Consensus       101 ~d~~~~~----------s~~~~~~~~~~-l~~~~~~~~p~ivv~nK~Dl~~~----------------~~~~~~~~~~~~  153 (221)
                      +|.++..          .+.....++.. +......+.|++|++||+|+.+.                .....+.+.++.
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~  154 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFL  154 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHH
Confidence            9988743          23344444443 33333568999999999997211                011222333322


Q ss_pred             HH-----------hCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Q psy2300         154 ES-----------LGVEFFETSAKDNVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       154 ~~-----------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~  186 (221)
                      ..           ..+.++++||+++.||+++|+.+.+.+.++.
T Consensus       155 ~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~~  198 (200)
T d1zcba2         155 VECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  198 (200)
T ss_dssp             HHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHHh
Confidence            21           1255778999999999999999999887764

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.89  E-value=8.2e-23  Score=149.27  Aligned_cols=162  Identities=18%  Similarity=0.130  Sum_probs=105.7

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc------------c
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY------------R   84 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~------------~   84 (221)
                      .+..+||+|+|++|+|||||+|+|++..... ...+..........+..++  ..+.++|++|....            .
T Consensus         5 ~~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~~~   82 (186)
T d1mkya2           5 ITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKYSN   82 (186)
T ss_dssp             CCSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCSCC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccchh
Confidence            3456999999999999999999999876321 1122222222222333443  45788999985321            1


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh-----CCe
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL-----GVE  159 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~  159 (221)
                      ......+..+|++++|+|++.+... ....++..+...   +.|+++|+||+|+.........+........     ..+
T Consensus        83 ~~~~~~~~~~dvii~v~d~~~~~~~-~~~~~~~~~~~~---~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (186)
T d1mkya2          83 YRVVDSIEKADVVVIVLDATQGITR-QDQRMAGLMERR---GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSP  158 (186)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCH-HHHHHHHHHHHT---TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHHhcCCEEEEeecccccchh-hHHHHHHHHHHc---CCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCe
Confidence            2233456789999999999875432 223344444443   7899999999998655544444444333332     257


Q ss_pred             EEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         160 FFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       160 ~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                      ++++||++|.|+++|+++|.+.+..+
T Consensus       159 i~~vSa~~g~gv~~L~~~i~~~~~~~  184 (186)
T d1mkya2         159 LIFTSADKGWNIDRMIDAMNLAYASY  184 (186)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            99999999999999999997776553

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.89  E-value=9.7e-23  Score=148.55  Aligned_cols=151  Identities=18%  Similarity=0.215  Sum_probs=99.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc---------------ccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER---------------YRTIT   87 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~---------------~~~~~   87 (221)
                      .|+++|.+|||||||+|+|++.....  ...+++|.....+...    .+.+|||||...               +....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~--~~~~g~T~~~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~   75 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRR--GKRPGVTRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFI   75 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSS--SSSTTCTTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee--eCCCCEeecccccccc----cceecccCCceeccccccccccccchhhhhhh
Confidence            68999999999999999999887533  3444445444444333    356899999421               11122


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHH----------HHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSI----------QDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG  157 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~----------~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~  157 (221)
                      ...++.+|++++|+|+.+.......          ..++..+..   .+.|+++|+||+|+.+....   ....+.....
T Consensus        76 ~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~~~~~---~~~~~~~~~~  149 (184)
T d2cxxa1          76 EDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIKNVQE---VINFLAEKFE  149 (184)
T ss_dssp             HHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCSCHHH---HHHHHHHHHT
T ss_pred             hhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhhhHHH---HHHHHHHHhc
Confidence            3345789999999998754322111          112233333   37999999999997554322   1222222222


Q ss_pred             -------CeEEEEecCCCCCHHHHHHHHHHHHHHh
Q psy2300         158 -------VEFFETSAKDNVNVKGVFERLVDIICDK  185 (221)
Q Consensus       158 -------~~~~~~Sa~~~~gi~~l~~~i~~~~~~~  185 (221)
                             ..++++||++|.|+++|+++|.+.+.++
T Consensus       150 ~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         150 VPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             CCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             ccccccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence                   2488999999999999999999887653

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.88  E-value=2.4e-23  Score=148.53  Aligned_cols=148  Identities=18%  Similarity=0.188  Sum_probs=98.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCC-ccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccc-----c----ccchhhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTS-AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERY-----R----TITTAYY   91 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~-----~----~~~~~~~   91 (221)
                      +||+|+|.+|+|||||+|+|++..... ...+..............  +..+.+|||||....     .    ......+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIR--GILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEET--TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeC--CeeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            689999999999999999999875321 222222222222233333  357889999993211     0    1122236


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCH
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKDNVNV  171 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  171 (221)
                      ..+|++++|+|++++........+. .+     ...++++++||.|+.+..  ..++.... ...+.+++++||++|.|+
T Consensus        79 ~~ad~ii~v~d~~~~~~~~~~~~~~-~~-----~~~~~i~~~~k~d~~~~~--~~~~~~~~-~~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          79 EKADIVLFVLDASSPLDEEDRKILE-RI-----KNKRYLVVINKVDVVEKI--NEEEIKNK-LGTDRHMVKISALKGEGL  149 (160)
T ss_dssp             HHCSEEEEEEETTSCCCHHHHHHHH-HH-----TTSSEEEEEEECSSCCCC--CHHHHHHH-HTCSTTEEEEEGGGTCCH
T ss_pred             HhCCEEEEEEeCCCCcchhhhhhhh-hc-----ccccceeeeeeccccchh--hhHHHHHH-hCCCCcEEEEECCCCCCH
Confidence            7899999999999887655443222 11     368899999999996643  23333222 223468999999999999


Q ss_pred             HHHHHHHHH
Q psy2300         172 KGVFERLVD  180 (221)
Q Consensus       172 ~~l~~~i~~  180 (221)
                      ++|+++|.+
T Consensus       150 ~~L~~~I~k  158 (160)
T d1xzpa2         150 EKLEESIYR  158 (160)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999865

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.88  E-value=1.6e-22  Score=152.31  Aligned_cols=163  Identities=17%  Similarity=0.165  Sum_probs=105.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCCCCCcccccee--eeeEEEE--------------EEeCCeEEEEEEEeCCCcccccccc
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG--IDFKVKT--------------VFRHDKRVKLQIWDTAGQERYRTIT   87 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~--~~~~~~~--------------~~~~~~~~~~~i~D~~g~~~~~~~~   87 (221)
                      |+|+|++++|||||+++|+.............  .......              ..+......+.++||||+..|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            99999999999999999986431110000000  0000000              1122334578999999999998888


Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC-----------------H---H
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS-----------------F---E  147 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~-----------------~---~  147 (221)
                      ...+..+|++|+|+|+.+.-..... ..+..+...   +.|+++++||+|+.......                 .   .
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~-~~~~~~~~~---~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~  163 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQ-EALNILRMY---RTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHH-HHHHHHHHT---TCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hhcccccceEEEEEecccCcccchh-HHHHHhhcC---CCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHH
Confidence            8888999999999999875433332 333444443   78999999999985432110                 0   0


Q ss_pred             HHHHHHH---Hh---------------CCeEEEEecCCCCCHHHHHHHHHHHHHHhhcccc
Q psy2300         148 RGKHLAE---SL---------------GVEFFETSAKDNVNVKGVFERLVDIICDKMSESL  190 (221)
Q Consensus       148 ~~~~~~~---~~---------------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~~~  190 (221)
                      .......   ..               ..+++++||.+|.|+++|++.|.....+.+.+..
T Consensus       164 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~~~l  224 (227)
T d1g7sa4         164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLREQL  224 (227)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCSGGG
T ss_pred             HHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHHHhh
Confidence            0000010   00               1368999999999999999999988877665543

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.87  E-value=2.7e-21  Score=142.21  Aligned_cols=161  Identities=16%  Similarity=0.155  Sum_probs=97.9

Q ss_pred             hhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----------c
Q psy2300          14 ADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----------Y   83 (221)
Q Consensus        14 ~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----------~   83 (221)
                      ++.|.+...+|+|+|.+|||||||+|+|++...........+.+...........   +.+.|+++...          .
T Consensus        16 ~~~p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~d~~~~~~~~~~~~~~~~~   92 (195)
T d1svia_          16 EQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDE---LHFVDVPGYGFAKVSKSEREAW   92 (195)
T ss_dssp             GGSCCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETTT---EEEEECCCBCCCSSCHHHHHHH
T ss_pred             hHCCCCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeeccccccccc---ceEEEEEeeccccccccccchh
Confidence            4555566679999999999999999999987543333344444444443433322   33455555211          1


Q ss_pred             ---cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHH----h
Q psy2300          84 ---RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAES----L  156 (221)
Q Consensus        84 ---~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----~  156 (221)
                         ...+...+..+|++++|+|++++... ....++..+...   +.|+++|+||+|+.+..... +....+.+.    .
T Consensus        93 ~~~~~~~~~~~~~~~~vi~viD~~~~~~~-~~~~~~~~l~~~---~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~  167 (195)
T d1svia_          93 GRMIETYITTREELKAVVQIVDLRHAPSN-DDVQMYEFLKYY---GIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDP  167 (195)
T ss_dssp             HHHHHHHHHHCTTEEEEEEEEETTSCCCH-HHHHHHHHHHHT---TCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCT
T ss_pred             hhHHhhhhccccchhhhhhhhhccccccc-cccccccccccc---cCcceechhhccccCHHHHH-HHHHHHHHHhcccC
Confidence               11122345678999999999865332 223455555553   78999999999985543322 222222222    2


Q ss_pred             CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         157 GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      +.+++++||++|.|+++++++|.+.+
T Consensus       168 ~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         168 EDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999998876

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.86  E-value=1.6e-22  Score=151.71  Aligned_cols=162  Identities=21%  Similarity=0.200  Sum_probs=116.8

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi   98 (221)
                      ...+||+++|..|||||||++++..+.    ..||.|...  ..+..+  .+.+.+||++|++.++..|..++..+++++
T Consensus         4 k~~~KilllG~~~vGKTsll~~~~~~~----~~pTiG~~~--~~~~~~--~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii   75 (221)
T d1azta2           4 RATHRLLLLGAGESGKSTIVKQMRILH----VVLTSGIFE--TKFQVD--KVNFHMFDVGGQRDERRKWIQCFNDVTAII   75 (221)
T ss_dssp             HHSEEEEEECSTTSSHHHHHHHHHHHH----CCCCCSCEE--EEEEET--TEEEEEEECCCSTTTTTGGGGGCTTCSEEE
T ss_pred             hhcCEEEEECCCCCCHHHHHHHHhcCC----cCCCCCeEE--EEEEEC--cEEEEEEecCccceeccchhhhcccccceE
Confidence            457999999999999999999997654    457777444  334444  478999999999999999999999999999


Q ss_pred             EEEECCCh----------hhHHHH-HHHHHHHHhhCCCCCcEEEEEeCCCCCCCcc------------------------
Q psy2300          99 LMYDVTNE----------ESFTSI-QDWITQIKTYSWDNAQVILVGNKCDMEDERV------------------------  143 (221)
Q Consensus        99 ~v~d~~~~----------~s~~~~-~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~------------------------  143 (221)
                      +|+|.++.          ..+.+. ..|...+......+.|++|++||+|+.+.+.                        
T Consensus        76 ~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~  155 (221)
T d1azta2          76 FVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDAT  155 (221)
T ss_dssp             EEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCC
T ss_pred             EEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCccccc
Confidence            99998753          223333 3344444444456899999999999732111                        


Q ss_pred             ------cCHHHHHHHH-----HHh--------CCeEEEEecCCCCCHHHHHHHHHHHHHHhhcc
Q psy2300         144 ------ISFERGKHLA-----ESL--------GVEFFETSAKDNVNVKGVFERLVDIICDKMSE  188 (221)
Q Consensus       144 ------~~~~~~~~~~-----~~~--------~~~~~~~Sa~~~~gi~~l~~~i~~~~~~~~~~  188 (221)
                            ....++..+.     +..        .+..+++||+++.+|..+|+.+.+.|.+...+
T Consensus       156 ~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~~l~  219 (221)
T d1azta2         156 PEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHLR  219 (221)
T ss_dssp             CCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHHHHT
T ss_pred             ccCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHHHhh
Confidence                  0112222221     111        13467899999999999999999888877554

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.86  E-value=1.5e-22  Score=147.81  Aligned_cols=156  Identities=16%  Similarity=0.116  Sum_probs=97.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccc----ccccch---hhccCCc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQER----YRTITT---AYYRGAM   95 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~----~~~~~~---~~~~~~d   95 (221)
                      .|+|+|.+|||||||+|+|++........+..+.+.........+. ..+.+|||||...    ...+..   ..+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~~~-~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEecCC-cEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            6999999999999999999987643222222222333333333322 3588999999522    111212   2345688


Q ss_pred             EEEEEEECCChhhHHHHH---HHHH--HHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh--CCeEEEEecCCC
Q psy2300          96 GFILMYDVTNEESFTSIQ---DWIT--QIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL--GVEFFETSAKDN  168 (221)
Q Consensus        96 ~vi~v~d~~~~~s~~~~~---~~~~--~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~  168 (221)
                      .++++++...........   .+..  ........++|+++|+||+|+.+..    +..+.+.+..  +.+++.+||++|
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g  157 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  157 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCC
Confidence            999888866432221111   1111  1122223468999999999996542    2233333333  578999999999


Q ss_pred             CCHHHHHHHHHHHHH
Q psy2300         169 VNVKGVFERLVDIIC  183 (221)
Q Consensus       169 ~gi~~l~~~i~~~~~  183 (221)
                      .|+++|+++|.+.+.
T Consensus       158 ~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         158 EGLRELLFEVANQLE  172 (185)
T ss_dssp             STTHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHhhh
Confidence            999999999888763

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=1e-20  Score=140.31  Aligned_cols=118  Identities=15%  Similarity=0.273  Sum_probs=87.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-ccchhhccCCcEEEEEE
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-TITTAYYRGAMGFILMY  101 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-~~~~~~~~~~d~vi~v~  101 (221)
                      +|+|+|++|||||||+++|+++.+.. ..++.+.+.....+. +...+.+.+||++|++.+. ..+..++..++++++|+
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~-~~~t~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~   79 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRD-TQTSITDSSAIYKVN-NNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVV   79 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-BCCCCSCEEEEEECS-STTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCc-ccCCeeEEEEEEEEe-eeeeeeeeeeeccccccccchhhhhhhhhccccceEE
Confidence            68999999999999999999988754 346666555444432 3345789999999998775 56677889999999999


Q ss_pred             ECCChhhH-HHHHHHHHHH-Hh--hCCCCCcEEEEEeCCCCCCCc
Q psy2300         102 DVTNEESF-TSIQDWITQI-KT--YSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus       102 d~~~~~s~-~~~~~~~~~l-~~--~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      |+++..++ .....++..+ ..  ......|++|++||+|+++..
T Consensus        80 D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          80 DSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             EcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            99987653 4444444333 22  223568999999999997654

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.86  E-value=6.9e-21  Score=140.07  Aligned_cols=162  Identities=15%  Similarity=0.179  Sum_probs=106.6

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCc-cccc----eeeeeEEEEE-------------------EeCCeEEEEEE
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSA-FVST----VGIDFKVKTV-------------------FRHDKRVKLQI   74 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~-~~~~----~~~~~~~~~~-------------------~~~~~~~~~~i   74 (221)
                      ...++|+++|+.++|||||+++|++...... ....    ....+.....                   ........+.+
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEee
Confidence            4678999999999999999999986432111 0011    1111111111                   11122466899


Q ss_pred             EeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHH
Q psy2300          75 WDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHL  152 (221)
Q Consensus        75 ~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~  152 (221)
                      +|+||++.|.......+..+|++++|+|+.+..........+..+....  ..++++++||+|+.+.....  ......+
T Consensus        83 iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~~  160 (195)
T d1kk1a3          83 IDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEF  160 (195)
T ss_dssp             EECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHH
T ss_pred             eccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHHH
Confidence            9999999998888888899999999999988643333444444444442  45688899999986643221  1222333


Q ss_pred             HHHh---CCeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         153 AESL---GVEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       153 ~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      ....   +++++++||++|+|+++|++.|.+.+
T Consensus       161 ~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         161 IEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             hccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            3322   26899999999999999999887643

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.84  E-value=4.9e-20  Score=136.46  Aligned_cols=160  Identities=14%  Similarity=0.135  Sum_probs=102.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCC---cccc----ceeeeeEEEEE----------------------EeCCeEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTS---AFVS----TVGIDFKVKTV----------------------FRHDKRV   70 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~---~~~~----~~~~~~~~~~~----------------------~~~~~~~   70 (221)
                      +.++|+++|+.++|||||+++|++.....   ....    ..+........                      .......
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            45899999999999999999998632110   0000    00100000000                      0011234


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--HH
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--ER  148 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~  148 (221)
                      .+.++|+||+..|.......+..+|++|+|+|+.+.-.....+..+..+...  ...|++|++||+|+.+......  ..
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~--~i~~iIV~vNK~Dl~~~~~~~~~~~~  164 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII--GVKNLIIVQNKVDVVSKEEALSQYRQ  164 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT--TCCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc--CCceeeeccccCCCccchHHHHHHHH
Confidence            6899999999999888888889999999999998753222333333334443  2458999999999966432211  11


Q ss_pred             HHHHHHHh---CCeEEEEecCCCCCHHHHHHHHHHH
Q psy2300         149 GKHLAESL---GVEFFETSAKDNVNVKGVFERLVDI  181 (221)
Q Consensus       149 ~~~~~~~~---~~~~~~~Sa~~~~gi~~l~~~i~~~  181 (221)
                      ...+....   +++++++||++|.|+++|++.|.++
T Consensus       165 ~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~  200 (205)
T d2qn6a3         165 IKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEY  200 (205)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhh
Confidence            22222222   3689999999999999999887654

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.83  E-value=5.3e-21  Score=140.28  Aligned_cols=158  Identities=15%  Similarity=0.118  Sum_probs=108.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC-----C--C-------CCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD-----S--F-------TSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT   85 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~-----~--~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~   85 (221)
                      +.++|+++|+.++|||||+++|+..     .  +       ........+++.......+......+.++|+||+..|..
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~   81 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHH
Confidence            4589999999999999999999741     0  0       011123335556655555555667899999999999988


Q ss_pred             cchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC---HHHHHHHHHHhC-----
Q psy2300          86 ITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS---FERGKHLAESLG-----  157 (221)
Q Consensus        86 ~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~-----  157 (221)
                      .....+..+|++++|+|+.+.-.- +....+..+...  ...|+||++||+|+.......   ..+...+....+     
T Consensus        82 ~~~~~~~~aD~allVVda~~G~~~-QT~~~~~~a~~~--~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~  158 (196)
T d1d2ea3          82 NMITGTAPLDGCILVVAANDGPMP-QTREHLLLARQI--GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEE  158 (196)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCH-HHHHHHHHHHHT--TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTT
T ss_pred             HHHHHHhhcCeEEEEEEcCCCCch-hHHHHHHHHHHh--cCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCccc
Confidence            888889999999999999986432 233334444443  256899999999986432211   113334444343     


Q ss_pred             CeEEEEecCCC----------CCHHHHHHHHHH
Q psy2300         158 VEFFETSAKDN----------VNVKGVFERLVD  180 (221)
Q Consensus       158 ~~~~~~Sa~~~----------~gi~~l~~~i~~  180 (221)
                      ++++++|+++|          .|+.+|++.|.+
T Consensus       159 ~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         159 TPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             SCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             CEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence            57999999988          477777776644

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.81  E-value=3e-19  Score=129.14  Aligned_cols=157  Identities=17%  Similarity=0.178  Sum_probs=99.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEE-EEEEeCCeEEEEEEEeCCCcc---------cccccch
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKV-KTVFRHDKRVKLQIWDTAGQE---------RYRTITT   88 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~---------~~~~~~~   88 (221)
                      .|.-.|+|+|.+|||||||+|+|++...........+.+... .....+.  ..+..||++|..         .+.....
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   80 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccc
Confidence            455679999999999999999999876432222222222222 2222222  345678877732         1122233


Q ss_pred             hhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC-CeEEEEecCC
Q psy2300          89 AYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG-VEFFETSAKD  167 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  167 (221)
                      .....+++++++.|..+...  ....+...+..   ...|.++++||.|..............+....+ .+++++||++
T Consensus        81 ~~~~~~~~~l~~~d~~~~~~--~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~  155 (179)
T d1egaa1          81 SSIGDVELVIFVVEGTRWTP--DDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAET  155 (179)
T ss_dssp             SCCCCEEEEEEEEETTCCCH--HHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTT
T ss_pred             cchhhcceeEEEEecCccch--hHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcC
Confidence            34467888889998775432  22233333333   368899999999986654433344444455555 4899999999


Q ss_pred             CCCHHHHHHHHHHHH
Q psy2300         168 NVNVKGVFERLVDII  182 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~  182 (221)
                      |.|+++|+++|.+.+
T Consensus       156 g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         156 GLNVDTIAAIVRKHL  170 (179)
T ss_dssp             TTTHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhC
Confidence            999999999887654

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.79  E-value=2e-19  Score=132.79  Aligned_cols=143  Identities=16%  Similarity=0.111  Sum_probs=94.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC------C--CCC-------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD------S--FTS-------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~------~--~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      +.++|+++|++++|||||+++|+..      .  +..       ......+++.......+...+..+.|+||||+..|.
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~   81 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYI   81 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhH
Confidence            4689999999999999999999632      0  000       000112445444444444555788999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcccC---HHHHHHHHHHhC---
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERVIS---FERGKHLAESLG---  157 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~---  157 (221)
                      ......+..+|++|+|+|+.+.-..+..+.| ..+...   +.| ++|++||+|+.+....-   .++.+.+....+   
T Consensus        82 ~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~~---gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~  157 (204)
T d2c78a3          82 KNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQV---GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPG  157 (204)
T ss_dssp             HHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHHT---TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHHc---CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCc
Confidence            8888889999999999999886555443333 333333   665 77889999986532211   122333333333   


Q ss_pred             --CeEEEEecC
Q psy2300         158 --VEFFETSAK  166 (221)
Q Consensus       158 --~~~~~~Sa~  166 (221)
                        +++++.|+.
T Consensus       158 ~~i~~i~~sa~  168 (204)
T d2c78a3         158 DEVPVIRGSAL  168 (204)
T ss_dssp             TTSCEEECCHH
T ss_pred             ccceeeeeech
Confidence              467888875

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.78  E-value=1.8e-18  Score=128.95  Aligned_cols=154  Identities=21%  Similarity=0.219  Sum_probs=99.9

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC-----------------------------ccccceeeeeEEEEEE
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDS--FTS-----------------------------AFVSTVGIDFKVKTVF   64 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~-----------------------------~~~~~~~~~~~~~~~~   64 (221)
                      .+....++|+++|+.++|||||+.+|+...  ...                             ......+.+.......
T Consensus         4 ~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~   83 (222)
T d1zunb3           4 HERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRY   83 (222)
T ss_dssp             TTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEE
T ss_pred             cccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEE
Confidence            344578999999999999999999996321  100                             0011112222222222


Q ss_pred             eCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCC-cEEEEEeCCCCCCCcc
Q psy2300          65 RHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNA-QVILVGNKCDMEDERV  143 (221)
Q Consensus        65 ~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~-p~ivv~nK~Dl~~~~~  143 (221)
                      .......+.++|+||+..|.......+..+|++++|+|+.+.-.-+. ...+..+...   +. .+++++||+|+.+..+
T Consensus        84 ~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt-~e~~~~~~~~---gv~~iiv~vNK~D~~~~~~  159 (222)
T d1zunb3          84 FSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASLL---GIKHIVVAINKMDLNGFDE  159 (222)
T ss_dssp             EECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCEEEEEEECTTTTTSCH
T ss_pred             EeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccch-HHHHHHHHHc---CCCEEEEEEEccccccccc
Confidence            33344679999999999999888888999999999999987543332 2333333333   54 4889999999976433


Q ss_pred             cCHH----HHHHHHHHhC-----CeEEEEecCCCCCHHH
Q psy2300         144 ISFE----RGKHLAESLG-----VEFFETSAKDNVNVKG  173 (221)
Q Consensus       144 ~~~~----~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  173 (221)
                      ...+    ++..+....+     ++++++||.+|.|+.+
T Consensus       160 ~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         160 RVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             eehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            2222    2344444443     3679999999999843

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.77  E-value=1.3e-18  Score=126.32  Aligned_cols=167  Identities=14%  Similarity=0.065  Sum_probs=91.3

Q ss_pred             hhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc-------
Q psy2300          12 DAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR-------   84 (221)
Q Consensus        12 ~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~-------   84 (221)
                      ++.+.|.+..++|+|+|.+|||||||+|+|++...........+................+..++.++.....       
T Consensus         7 ~~~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (188)
T d1puia_           7 DIRHLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQ   86 (188)
T ss_dssp             SGGGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHH
T ss_pred             ChhHCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhh
Confidence            4567788899999999999999999999999877543333333222222222222222223233332211111       


Q ss_pred             cc---chhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--HHHHHHHHHh--C
Q psy2300          85 TI---TTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--ERGKHLAESL--G  157 (221)
Q Consensus        85 ~~---~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~~--~  157 (221)
                      ..   ........+.++.+.+......... ..++..+...   ..++++++||+|+.+......  +...+.....  .
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~---~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~  162 (188)
T d1puia_          87 RALGEYLEKRQSLQGLVVLMDIRHPLKDLD-QQMIEWAVDS---NIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGD  162 (188)
T ss_dssp             HHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHHHT---TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSC
T ss_pred             hhhhhhhhhhhheeEEEEeecccccchhHH-HHHHHHhhhc---cccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCC
Confidence            11   1112234455666666655443332 3344444443   789999999999865422211  1122222222  2


Q ss_pred             CeEEEEecCCCCCHHHHHHHHHHHH
Q psy2300         158 VEFFETSAKDNVNVKGVFERLVDII  182 (221)
Q Consensus       158 ~~~~~~Sa~~~~gi~~l~~~i~~~~  182 (221)
                      .+++++||++|.|+++|++.|.+.+
T Consensus       163 ~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         163 VQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4789999999999999999987754

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.74  E-value=1.7e-18  Score=128.09  Aligned_cols=117  Identities=21%  Similarity=0.294  Sum_probs=82.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcccccccchhh----ccCCc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRTITTAY----YRGAM   95 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~----~~~~d   95 (221)
                      |..+|+|+|++|||||||+|+|+++.+.    ++.+......  .+...+..+.+||+||++.+...+..+    +..++
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~----~~tt~~~~~~--~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~   75 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVR----PTVVSQEPLS--AADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVK   75 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCC----CBCCCSSCEE--ETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC----CeEEecceEE--EEEeCCeEEEEEecccccchhhHHHHHHHHHhhhcc
Confidence            5568999999999999999999998753    2222222222  234445678999999988766554443    45568


Q ss_pred             EEEEEEECCC-hhhHHHHHHHHH----HHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          96 GFILMYDVTN-EESFTSIQDWIT----QIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        96 ~vi~v~d~~~-~~s~~~~~~~~~----~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      .+++++|+.+ ..++.....|+.    .+......+.|+++++||+|+.+..
T Consensus        76 ~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          76 GLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             ccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccC
Confidence            8999999764 455555555543    3344556789999999999996643

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.71  E-value=2.1e-17  Score=124.99  Aligned_cols=164  Identities=16%  Similarity=0.155  Sum_probs=90.1

Q ss_pred             hhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHHhcCC--CCC---------------------------ccccceeeeeEE
Q psy2300          10 QKDAADQNFDYMFKLLIIGNSSVGKTSFLFRYADDS--FTS---------------------------AFVSTVGIDFKV   60 (221)
Q Consensus        10 ~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l~~~~--~~~---------------------------~~~~~~~~~~~~   60 (221)
                      ++...+......++|+++|+.++|||||+.+|+...  ...                           ......+.+...
T Consensus        13 ~~~~~~~~~k~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~   92 (245)
T d1r5ba3          13 QELLKDMYGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEV   92 (245)
T ss_dssp             STTHHHHSCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC---------------------------
T ss_pred             HHHHHHhcCCCceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccc
Confidence            344445455567899999999999999999995311  000                           001111222222


Q ss_pred             EEEEeCCeEEEEEEEeCCCcccccccchhhccCCcEEEEEEECCChh---hH---HHHHHHHHHHHhhCCCCC-cEEEEE
Q psy2300          61 KTVFRHDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEE---SF---TSIQDWITQIKTYSWDNA-QVILVG  133 (221)
Q Consensus        61 ~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~---s~---~~~~~~~~~l~~~~~~~~-p~ivv~  133 (221)
                      ...........+.+.|+||+..|..........+|++++|+|+.+..   ++   ......+..+...   +. ++++++
T Consensus        93 ~~~~~~~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~---~i~~iiv~i  169 (245)
T d1r5ba3          93 GRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ---GINHLVVVI  169 (245)
T ss_dssp             -CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT---TCSSEEEEE
T ss_pred             cccccccccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc---CCCeEEEEE
Confidence            22222334467999999999999998888899999999999998742   11   1223333333333   44 488999


Q ss_pred             eCCCCCCCc--ccCHHH----HHHHHHHh-------CCeEEEEecCCCCCHHHHHH
Q psy2300         134 NKCDMEDER--VISFER----GKHLAESL-------GVEFFETSAKDNVNVKGVFE  176 (221)
Q Consensus       134 nK~Dl~~~~--~~~~~~----~~~~~~~~-------~~~~~~~Sa~~~~gi~~l~~  176 (221)
                      ||+|+....  +..+++    ...+....       .++++++||++|+||.++++
T Consensus       170 NKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         170 NKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             ECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             EcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            999986432  111122    22222222       25799999999999977543

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.70  E-value=9e-17  Score=122.74  Aligned_cols=115  Identities=18%  Similarity=0.159  Sum_probs=80.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC--CCC--------------ccccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS--FTS--------------AFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~--~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      .-+|+++|+.++|||||+.+++...  ...              ......+++.......+.+++..++|+||||+..|.
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhH
Confidence            3479999999999999999986321  000              000111222222223333344679999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ......+..+|++|+|+|+.+.-......-|... ..   .+.|.++++||+|.+
T Consensus        86 ~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w~~a-~~---~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          86 IEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA-EK---YKVPRIAFANKMDKT  136 (276)
T ss_dssp             TTHHHHHHHCCEEEEEEETTTSSCHHHHHHHHHH-HT---TTCCEEEEEECTTST
T ss_pred             HHHHHHHHhhhheEEeccccCCcchhHHHHHHHH-HH---cCCCEEEEEeccccc
Confidence            9888999999999999999987655555455333 33   389999999999974

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=1.6e-17  Score=125.10  Aligned_cols=151  Identities=15%  Similarity=0.133  Sum_probs=100.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC--CCC---------------C------------ccccceeeeeEEEEEEeCCeEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD--SFT---------------S------------AFVSTVGIDFKVKTVFRHDKRV   70 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~--~~~---------------~------------~~~~~~~~~~~~~~~~~~~~~~   70 (221)
                      ..++|+++|+.++|||||+.+|+..  ...               .            ......+++.......+.....
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~   84 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKY   84 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSE
T ss_pred             CccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCCE
Confidence            4589999999999999999998631  000               0            0011124444433333444557


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhh---H---HHHHHHHHHHHhhCCCCCc-EEEEEeCCCCCCCcc
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEES---F---TSIQDWITQIKTYSWDNAQ-VILVGNKCDMEDERV  143 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s---~---~~~~~~~~~l~~~~~~~~p-~ivv~nK~Dl~~~~~  143 (221)
                      ++.|.|+|||..|...+...+..+|++|+|+|+.+..-   +   ......+......   +.| +||++||+|+.+...
T Consensus        85 ~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~---gv~~iiv~iNKmD~~~~d~  161 (239)
T d1f60a3          85 QVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL---GVRQLIVAVNKMDSVKWDE  161 (239)
T ss_dssp             EEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT---TCCEEEEEEECGGGGTTCH
T ss_pred             EEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHc---CCCeEEEEEECCCCCCCCH
Confidence            89999999999999988889999999999999986421   0   1223333333333   555 888999999866433


Q ss_pred             cCH----HHHHHHHHHhC-----CeEEEEecCCCCCHHH
Q psy2300         144 ISF----ERGKHLAESLG-----VEFFETSAKDNVNVKG  173 (221)
Q Consensus       144 ~~~----~~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  173 (221)
                      ..+    ++...+....+     ++++++|+.+|.|+-+
T Consensus       162 ~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         162 SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            222    23344444443     5689999999988754

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.68  E-value=1.5e-16  Score=121.13  Aligned_cols=111  Identities=11%  Similarity=0.146  Sum_probs=78.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC--CC--Cc--------------cccceeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS--FT--SA--------------FVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~--~~--~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      +|+|+|+.++|||||+.+|+...  ..  ..              .....++......+..  .+.++.++||||+..|.
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~--~~~~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF--RGHRVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE--TTEEEEEEECCCSGGGH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccc--cccceeEEccCchhhhh
Confidence            69999999999999999986321  00  00              0011122223333433  44678999999999999


Q ss_pred             ccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC
Q psy2300          85 TITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME  139 (221)
Q Consensus        85 ~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~  139 (221)
                      ......++.+|++|+|+|+.+.-.......|... ...   +.|.++++||+|..
T Consensus        82 ~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~-~~~---~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          82 GEIRGALEAADAALVAVSAEAGVQVGTERAWTVA-ERL---GLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH-HHT---TCCEEEEEECGGGC
T ss_pred             hhhhhhhcccCceEEEeeccCCccchhHHHHHhh-hhc---cccccccccccccc
Confidence            8888899999999999999987655555444433 333   89999999999963

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.67  E-value=6.6e-17  Score=120.91  Aligned_cols=152  Identities=20%  Similarity=0.228  Sum_probs=94.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC--CCC---------------------------ccccceeeeeEEEEEEeCCeEE
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS--FTS---------------------------AFVSTVGIDFKVKTVFRHDKRV   70 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~~~   70 (221)
                      +.++|+++|+.++|||||+.+|+...  ...                           ......+.+.......++....
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~   81 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKY   81 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSC
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCCc
Confidence            36899999999999999999986311  000                           0111223334444444444557


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhH------HHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc--
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESF------TSIQDWITQIKTYSWDNAQVILVGNKCDMEDER--  142 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~------~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~--  142 (221)
                      .+.++||||+..|...+...+..+|++|+|+|+.+...-      ......+......  ...++++++||+|+....  
T Consensus        82 ~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~--~~~~iIv~iNK~D~~~~~~~  159 (224)
T d1jnya3          82 FFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM--GLDQLIVAVNKMDLTEPPYD  159 (224)
T ss_dssp             EEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT--TCTTCEEEEECGGGSSSTTC
T ss_pred             eeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh--CCCceEEEEEcccCCCcccc
Confidence            899999999999999999999999999999999975211      1122222222222  245689999999986421  


Q ss_pred             ccCHH----HHHHHHHHhC-----CeEEEEecCCCCCHHH
Q psy2300         143 VISFE----RGKHLAESLG-----VEFFETSAKDNVNVKG  173 (221)
Q Consensus       143 ~~~~~----~~~~~~~~~~-----~~~~~~Sa~~~~gi~~  173 (221)
                      ....+    +...+...++     ++++++||..|.|+.+
T Consensus       160 ~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         160 EKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             HHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            11111    2333333333     5789999999998853

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.58  E-value=5.8e-15  Score=119.10  Aligned_cols=157  Identities=14%  Similarity=0.198  Sum_probs=92.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCCCCccc---cceeeeeEEEEEEeCCeEEEEEEEeCCCcccccc-----cchhhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSFTSAFV---STVGIDFKVKTVFRHDKRVKLQIWDTAGQERYRT-----ITTAYY   91 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----~~~~~~   91 (221)
                      ..++|+|+|.+|+|||||+|+|.+........   ...+++.....+...+ .-.+.+|||||-.....     +....+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~~-~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPN-IPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSS-CTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeeccC-CCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            46999999999999999999999865322111   1122333333333322 22477999999543222     222335


Q ss_pred             cCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCC-------CCcccCHHH----HH----HHHHHh
Q psy2300          92 RGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDME-------DERVISFER----GK----HLAESL  156 (221)
Q Consensus        92 ~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~~----~~----~~~~~~  156 (221)
                      ..+|+++++.|..-.+  .+ ..+...+...   +.|+++|.||+|..       .......+.    .+    ......
T Consensus       134 ~~~d~~l~~~~~~~~~--~d-~~l~~~l~~~---~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~  207 (400)
T d1tq4a_         134 YEYDFFIIISATRFKK--ND-IDIAKAISMM---KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFREN  207 (400)
T ss_dssp             GGCSEEEEEESSCCCH--HH-HHHHHHHHHT---TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHT
T ss_pred             hcceEEEEecCCCCCH--HH-HHHHHHHHHc---CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHc
Confidence            6789988888754222  22 2344555554   79999999999952       111111111    11    112222


Q ss_pred             C---CeEEEEecCCC--CCHHHHHHHHHHHHH
Q psy2300         157 G---VEFFETSAKDN--VNVKGVFERLVDIIC  183 (221)
Q Consensus       157 ~---~~~~~~Sa~~~--~gi~~l~~~i~~~~~  183 (221)
                      +   -++|.+|..+.  .|+.+|.+.+.+.+-
T Consensus       208 ~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~  239 (400)
T d1tq4a_         208 GIAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  239 (400)
T ss_dssp             TCSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             CCCCCCEEEecCCcccccCHHHHHHHHHHHhH
Confidence            3   25888887654  589999888877764

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.50  E-value=4.9e-14  Score=110.58  Aligned_cols=114  Identities=13%  Similarity=0.186  Sum_probs=80.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC--C--------------CCccccceeeeeEEEEEEe--------------CCeEE
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS--F--------------TSAFVSTVGIDFKVKTVFR--------------HDKRV   70 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~--~--------------~~~~~~~~~~~~~~~~~~~--------------~~~~~   70 (221)
                      .-+|+|+|+.++|||||+.+|+...  .              ..+.....++......+..              +++.+
T Consensus        17 IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~   96 (341)
T d1n0ua2          17 VRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSF   96 (341)
T ss_dssp             EEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEE
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccce
Confidence            3459999999999999999996211  0              0011111111122222211              34567


Q ss_pred             EEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCC
Q psy2300          71 KLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDM  138 (221)
Q Consensus        71 ~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl  138 (221)
                      .+.++||||+..|.......++-+|++++|+|+.++-..+...-|......    +.|+++++||+|.
T Consensus        97 ~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~~----~~p~i~viNKiDr  160 (341)
T d1n0ua2          97 LINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGE----RIKPVVVINKVDR  160 (341)
T ss_dssp             EEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHT----TCEEEEEEECHHH
T ss_pred             EEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHHc----CCCeEEEEECccc
Confidence            899999999999998888899999999999999987666655555555443    7999999999996

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.49  E-value=1.3e-13  Score=104.73  Aligned_cols=124  Identities=13%  Similarity=0.062  Sum_probs=73.4

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeee--eEEEEEEeCCeEEEEEEEeCCCcccccc-------cchh
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRHDKRVKLQIWDTAGQERYRT-------ITTA   89 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~i~D~~g~~~~~~-------~~~~   89 (221)
                      ...++|+|+|.+|+|||||+|.+++....... +..+.+  ........++  ..+.++||||-.....       ....
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs-~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~  106 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSIS-PFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKS  106 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCC-SSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeec-CCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHH
Confidence            46799999999999999999999987643221 222222  2233334444  5789999999421111       1111


Q ss_pred             --hccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCC--CCcEEEEEeCCCCCCCcccCH
Q psy2300          90 --YYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWD--NAQVILVGNKCDMEDERVISF  146 (221)
Q Consensus        90 --~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~--~~p~ivv~nK~Dl~~~~~~~~  146 (221)
                        .....++++||++++... +..+ ...+..+......  -.+++||+||+|.........
T Consensus       107 ~~~~~~~~~il~v~~~~~~r~~~~~-~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~  167 (257)
T d1h65a_         107 FLLDKTIDVLLYVDRLDAYRVDNLD-KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  167 (257)
T ss_dssp             HTTTCEECEEEEEEESSCCCCCHHH-HHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             HHhcCCCCeEEEEEECCCCCCCHHH-HHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcH
Confidence              124578899999887531 1111 1222222221111  357899999999866544443

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.45  E-value=2.7e-14  Score=107.43  Aligned_cols=111  Identities=16%  Similarity=0.066  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCcccccccchhh-----ccCCcEEEEEEECCC---hhhHHHHHHHHHHH-HhhCCCCCcEEEEEeCCCCCC
Q psy2300          70 VKLQIWDTAGQERYRTITTAY-----YRGAMGFILMYDVTN---EESFTSIQDWITQI-KTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~-----~~~~d~vi~v~d~~~---~~s~~~~~~~~~~l-~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ..+.+.|+||+..+.......     ....+.+++++|+..   +..+.......... .+.   ..|.++++||+|+..
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~---~~~~ivvinK~D~~~  171 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRL---GATTIPALNKVDLLS  171 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHH---TSCEEEEECCGGGCC
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHh---CCCceeeeecccccc
Confidence            347889999987543322221     234568899999753   33333222211111 222   789999999999865


Q ss_pred             CcccCHHH-----------------------HHH---HHHH--hCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         141 ERVISFER-----------------------GKH---LAES--LGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       141 ~~~~~~~~-----------------------~~~---~~~~--~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ........                       ...   ....  ..++++++||++|+|+++++.+|.+.+.
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~~  242 (244)
T d1yrba1         172 EEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  242 (244)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHhc
Confidence            32211000                       000   0011  2368999999999999999999888653

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.37  E-value=5e-12  Score=96.97  Aligned_cols=84  Identities=21%  Similarity=0.168  Sum_probs=53.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCe------------E---EEEEEEeCCCc-----
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDK------------R---VKLQIWDTAGQ-----   80 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~---~~~~i~D~~g~-----   80 (221)
                      .+||++||.|+||||||++++++........|..+.+-..-.+.+...            .   ..+.+.|+||-     
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~   81 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGAS   81 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcc
Confidence            479999999999999999999988754444444433333222322211            1   35889999992     


Q ss_pred             --ccccccchhhccCCcEEEEEEECC
Q psy2300          81 --ERYRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        81 --~~~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                        .......-..++.+|++++|+|+.
T Consensus        82 ~g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          82 KGEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             cCCCccHHHHHHHHhccceEEEeecc
Confidence              112223345678999999999863

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.27  E-value=1.5e-11  Score=95.93  Aligned_cols=103  Identities=14%  Similarity=0.100  Sum_probs=62.7

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERG  149 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~  149 (221)
                      +.+.|++|.|.-.   ........+|..++|......+..+....-+.        ..+-++|+||+|+.+.........
T Consensus       144 ~d~iiiETVG~gq---~e~~~~~~~D~~v~v~~p~~GD~iQ~~k~gil--------E~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQ---SETAVADLTDFFLVLMLPGAGDELQGIKKGIF--------ELADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSS---CHHHHHTTSSEEEEEECSCC------CCTTHH--------HHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhh---hhhhhhcccceEEEEeeccchhhhhhhhhhHh--------hhhheeeEeccccccchHHHHHHH
Confidence            3456777766422   12234566999999999887654433221111        245689999999876544333322


Q ss_pred             HHHHHH----------hCCeEEEEecCCCCCHHHHHHHHHHHHH
Q psy2300         150 KHLAES----------LGVEFFETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       150 ~~~~~~----------~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      ..+...          ...+++.+||++|.|+++++++|.+...
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHH
Confidence            222222          1247999999999999999999977654

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.26  E-value=3.9e-11  Score=92.70  Aligned_cols=86  Identities=20%  Similarity=0.203  Sum_probs=56.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEEeCCe---------------EEEEEEEeCCCccc-
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVFRHDK---------------RVKLQIWDTAGQER-   82 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~g~~~-   82 (221)
                      ..++|++||.||||||||++++++... .....|..+.+-..-.+.+...               ...+.+.|+||--. 
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            458999999999999999999997653 2333343333322333332221               24688999998321 


Q ss_pred             ------ccccchhhccCCcEEEEEEECCC
Q psy2300          83 ------YRTITTAYYRGAMGFILMYDVTN  105 (221)
Q Consensus        83 ------~~~~~~~~~~~~d~vi~v~d~~~  105 (221)
                            ........++.+|++++|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                  12223345789999999999754

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.24  E-value=6.6e-12  Score=98.02  Aligned_cols=86  Identities=13%  Similarity=0.142  Sum_probs=51.5

Q ss_pred             hccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCH--HHHHHHHHH-------hCCeE
Q psy2300          90 YYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISF--ERGKHLAES-------LGVEF  160 (221)
Q Consensus        90 ~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~-------~~~~~  160 (221)
                      +...+|.+++|.+....+..+.....+.        ..+-++|+||+|++.......  .+.......       ...++
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~gi~--------e~aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V  235 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKKGLM--------EVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRV  235 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCHHHH--------HHCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEE
T ss_pred             hhhccceEEEEecCCCchhhhhhchhhh--------ccccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCccee
Confidence            5577899999998765544333333222        234488899999876432211  112222211       12479


Q ss_pred             EEEecCCCCCHHHHHHHHHHHHH
Q psy2300         161 FETSAKDNVNVKGVFERLVDIIC  183 (221)
Q Consensus       161 ~~~Sa~~~~gi~~l~~~i~~~~~  183 (221)
                      +.|||.+|+|++++++.|.+...
T Consensus       236 ~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         236 LTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             EECBGGGTBSHHHHHHHHHHHHH
T ss_pred             EEEEeeCCCCHHHHHHHHHHHHH
Confidence            99999999999999999877553

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.12  E-value=3.5e-10  Score=87.32  Aligned_cols=118  Identities=15%  Similarity=0.200  Sum_probs=70.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC-CCccccceeeeeEEEEEE-----------------------------------
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF-TSAFVSTVGIDFKVKTVF-----------------------------------   64 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~-----------------------------------   64 (221)
                      ..+|+|+|..++|||||||+|++..+ +....+++..........                                   
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhC
Confidence            45899999999999999999999886 333333332111111000                                   


Q ss_pred             -------------eCC-eEEEEEEEeCCCcccc-------------cccchhhccCCc-EEEEEEECCChhhHHHHHHHH
Q psy2300          65 -------------RHD-KRVKLQIWDTAGQERY-------------RTITTAYYRGAM-GFILMYDVTNEESFTSIQDWI  116 (221)
Q Consensus        65 -------------~~~-~~~~~~i~D~~g~~~~-------------~~~~~~~~~~~d-~vi~v~d~~~~~s~~~~~~~~  116 (221)
                                   ... ....+.++|+||-...             ..+...|+...+ ++++|.++...-.-.....+.
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~  185 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIA  185 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHH
T ss_pred             CCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHH
Confidence                         000 0013789999994211             133445566666 556666666544434444454


Q ss_pred             HHHHhhCCCCCcEEEEEeCCCCCCC
Q psy2300         117 TQIKTYSWDNAQVILVGNKCDMEDE  141 (221)
Q Consensus       117 ~~l~~~~~~~~p~ivv~nK~Dl~~~  141 (221)
                      ..+..   ...++++|+||+|....
T Consensus       186 ~~~~~---~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         186 KEVDP---QGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHCT---TCSSEEEEEECGGGSCT
T ss_pred             HHhCc---CCCceeeEEeccccccc
Confidence            44433   36789999999998543

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.10  E-value=9.5e-11  Score=91.44  Aligned_cols=83  Identities=17%  Similarity=0.170  Sum_probs=45.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCCCCCcccccee------eeeEEEEE----------------EeCCeEEEEEEEeCCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG------IDFKVKTV----------------FRHDKRVKLQIWDTAG   79 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~------~~~~~~~~----------------~~~~~~~~~~i~D~~g   79 (221)
                      ++|+++|.||||||||+|+|++........|..+      +.......                ........+.++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            4899999999999999999998874333333222      22111110                0011336799999999


Q ss_pred             ccc-------ccccchhhccCCcEEEEEEECC
Q psy2300          80 QER-------YRTITTAYYRGAMGFILMYDVT  104 (221)
Q Consensus        80 ~~~-------~~~~~~~~~~~~d~vi~v~d~~  104 (221)
                      --.       ........++.+|++++|+|+.
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETT
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEeccc
Confidence            321       1222223467899999999975

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.94  E-value=1.9e-09  Score=83.39  Aligned_cols=26  Identities=27%  Similarity=0.525  Sum_probs=23.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      ..+|+|+|..++|||||||+|++..+
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~   49 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDF   49 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCC
T ss_pred             CCeEEEEeCCCCCHHHHHHHHhCCCC
Confidence            45899999999999999999999876

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.74  E-value=6.6e-09  Score=79.00  Aligned_cols=61  Identities=26%  Similarity=0.302  Sum_probs=39.1

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCc
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQ   80 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~   80 (221)
                      ......++|+|+|.||||||||+|+|.+... ....+.+|+|.....+..+.   .+.++||||.
T Consensus       107 ~~~~~~~~v~vvG~PNvGKSsliN~L~~~~~-~~~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         107 GVKPRAIRALIIGIPNVGKSTLINRLAKKNI-AKTGDRPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             TCCCCCEEEEEEESTTSSHHHHHHHHHTSCC-C------------CCEEETT---TEEEEECCCC
T ss_pred             cCCCCceEEEEEecCccchhhhhhhhhccce-EEECCcccccccceEEECCC---CeEEecCCCc
Confidence            3445789999999999999999999998774 34566777777665554432   3789999994

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.55  E-value=1.3e-07  Score=69.01  Aligned_cols=86  Identities=23%  Similarity=0.232  Sum_probs=62.7

Q ss_pred             hhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHh--CCeEEEEec
Q psy2300          89 AYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESL--GVEFFETSA  165 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa  165 (221)
                      ....+.|.+++|+++.+|+ +...+..++-.....   +.+.+||+||+||.+...  .+....+...+  +.+++.+|+
T Consensus         6 P~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~---~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           6 PHVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN---ELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT---TCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCT
T ss_pred             CCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc---CCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEecc
Confidence            3567889999999998864 556666676666654   899999999999965332  22233333332  368999999


Q ss_pred             CCCCCHHHHHHHHH
Q psy2300         166 KDNVNVKGVFERLV  179 (221)
Q Consensus       166 ~~~~gi~~l~~~i~  179 (221)
                      +++.|++++.+++.
T Consensus        81 ~~~~g~~~L~~~l~   94 (225)
T d1u0la2          81 KTGMGIEELKEYLK   94 (225)
T ss_dssp             TTCTTHHHHHHHHS
T ss_pred             ccchhHhhHHHHhc
Confidence            99999999888663

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.32  E-value=1.5e-07  Score=68.99  Aligned_cols=87  Identities=13%  Similarity=0.216  Sum_probs=63.3

Q ss_pred             hhccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccC--HHHHHHHHHHhCCeEEEEec
Q psy2300          89 AYYRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVIS--FERGKHLAESLGVEFFETSA  165 (221)
Q Consensus        89 ~~~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~Sa  165 (221)
                      ....+.|.+++|+++.+|. +...+..++-.....   +.+.+||+||+||.+.....  .+.........+++++.+|+
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~~---~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEAN---DIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHTT---TCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHHHHc---CCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeec
Confidence            3467889999999998764 566666666666554   89999999999996643211  11122334556899999999


Q ss_pred             CCCCCHHHHHHHH
Q psy2300         166 KDNVNVKGVFERL  178 (221)
Q Consensus       166 ~~~~gi~~l~~~i  178 (221)
                      +++.|++++.+++
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999998887655

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.28  E-value=4e-06  Score=58.66  Aligned_cols=24  Identities=29%  Similarity=0.587  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +||+++|++|+|||||++.+++..
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~l   24 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhcC
Confidence            589999999999999999998753

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.27  E-value=2.5e-07  Score=67.50  Aligned_cols=59  Identities=17%  Similarity=0.041  Sum_probs=35.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCCCCC--ccccc----eeeeeEEEEEEeCCeEEEEEEEeCCCccccc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDSFTS--AFVST----VGIDFKVKTVFRHDKRVKLQIWDTAGQERYR   84 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~~~~--~~~~~----~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~   84 (221)
                      ..+|+|.+|+|||||+|+|.......  +....    .-+|.....+.++++.   .++||||...+.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg---~iiDTPG~r~~~  161 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGG---YVVDTPGFANLE  161 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSC---EEESSCSSTTCC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCc---EEEeCCcccccc
Confidence            56899999999999999998653211  11111    1233333444455443   389999965443

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.20  E-value=1.5e-06  Score=65.64  Aligned_cols=91  Identities=19%  Similarity=0.148  Sum_probs=64.5

Q ss_pred             hhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhCCeEEEEecCC
Q psy2300          88 TAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLGVEFFETSAKD  167 (221)
Q Consensus        88 ~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  167 (221)
                      ...+..+|+||+|+|+.+|.+..+-  .+..+.    .++|.++|+||+|+.+...  .+....+....+..++.+|+.+
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~~--~l~~~~----~~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~isa~~   81 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRNP--MIEDIL----KNKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSINSVN   81 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSCH--HHHHHC----SSSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECCTTT
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCCH--HHHHHH----cCCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceeeccc
Confidence            4468899999999999988654331  122221    3789999999999965322  2223333444567899999999


Q ss_pred             CCCHHHHHHHHHHHHHHhh
Q psy2300         168 NVNVKGVFERLVDIICDKM  186 (221)
Q Consensus       168 ~~gi~~l~~~i~~~~~~~~  186 (221)
                      +.|..++...+.+.+.+..
T Consensus        82 ~~~~~~~~~~~~~~l~~~~  100 (273)
T d1puja_          82 GQGLNQIVPASKEILQEKF  100 (273)
T ss_dssp             CTTGGGHHHHHHHHHHHHH
T ss_pred             CCCccccchhhhhhhhhhh
Confidence            9999998888877766543

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.13  E-value=5.6e-06  Score=59.76  Aligned_cols=93  Identities=12%  Similarity=0.056  Sum_probs=55.5

Q ss_pred             EEEEEEeCCCccccccc------chhh--ccCCcEEEEEEECCChh-hHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCC
Q psy2300          70 VKLQIWDTAGQERYRTI------TTAY--YRGAMGFILMYDVTNEE-SFTSIQDWITQIKTYSWDNAQVILVGNKCDMED  140 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~------~~~~--~~~~d~vi~v~d~~~~~-s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~  140 (221)
                      ..+.++||+|...+...      ...+  .-..+-+++|+|+.... ....+..   ....    -.+--+|+||.|...
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~---~~~~----~~~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASK---FNQA----SKIGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHH---HHHH----CTTEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhh---hhcc----cCcceEEEecccCCC
Confidence            46889999996433310      1111  22456789999987543 2222222   2221    233457799999633


Q ss_pred             CcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300         141 ERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       141 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                          ..-.+...+...++|+..++  +|.+++++.
T Consensus       168 ----~~G~~l~~~~~~~lPi~~it--~Gq~v~DL~  196 (211)
T d1j8yf2         168 ----KGGGALSAVAATGATIKFIG--TGEKIDELE  196 (211)
T ss_dssp             ----CHHHHHHHHHTTTCCEEEEE--CSSSTTCEE
T ss_pred             ----cccHHHHHHHHHCcCEEEEe--CCCCcccCc
Confidence                24556677778889988887  477776543

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.10  E-value=3.9e-05  Score=55.79  Aligned_cols=71  Identities=13%  Similarity=0.182  Sum_probs=40.1

Q ss_pred             CcEEEEEEECCChhhHHHHHH-HHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHHHHHHhC--CeEEEEecCCCCC
Q psy2300          94 AMGFILMYDVTNEESFTSIQD-WITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKHLAESLG--VEFFETSAKDNVN  170 (221)
Q Consensus        94 ~d~vi~v~d~~~~~s~~~~~~-~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~g  170 (221)
                      .+.++.|+|+........... +..++      ...=++|+||+|+....    +..+...+..+  .++++++ .....
T Consensus       122 l~~vi~vVDa~~~~~~~~~~~~~~~Qi------~~AD~ivlNK~Dl~~~~----~~~~~~l~~lNP~a~Ii~~~-~g~v~  190 (222)
T d1nija1         122 LDGVIALVDAVHADEQMNQFTIAQSQV------GYADRILLTKTDVAGEA----EKLHERLARINARAPVYTVT-HGDID  190 (222)
T ss_dssp             EEEEEEEEETTTHHHHHHHCHHHHHHH------HTCSEEEEECTTTCSCT----HHHHHHHHHHCSSSCEEECC-SSCCC
T ss_pred             ccchhhhhhhhhhhhhhhhhHHHHHHH------HhCCcccccccccccHH----HHHHHHHHHHhCCCeEEEee-CCccC
Confidence            577899999876542222111 22223      23457889999986532    34455555555  4677544 33455


Q ss_pred             HHHHH
Q psy2300         171 VKGVF  175 (221)
Q Consensus       171 i~~l~  175 (221)
                      ++.+|
T Consensus       191 ~~~ll  195 (222)
T d1nija1         191 LGLLF  195 (222)
T ss_dssp             GGGGS
T ss_pred             HHHhh
Confidence            65554

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.09  E-value=5e-06  Score=60.11  Aligned_cols=93  Identities=14%  Similarity=0.060  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCcccccccc----hhh---cc-----CCcEEEEEEECCCh-hhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          70 VKLQIWDTAGQERYRTIT----TAY---YR-----GAMGFILMYDVTNE-ESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~----~~~---~~-----~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                      +.+.++||+|...+....    ..+   ..     ..+-.++|+|+.-. +.+..+..   ....    -.+--+|++|.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~---~~~~----~~~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKI---FKEA----VNVTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHH---HHHH----SCCCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhh---hccc----cCCceEEEecc
Confidence            457899999954332211    111   11     24678999998643 23333322   2222    23556889999


Q ss_pred             CCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300         137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       137 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      |....    .-.+.......++|+..++  +|.+++++.
T Consensus       167 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl~  199 (213)
T d1vmaa2         167 DGTAK----GGITLAIARELGIPIKFIG--VGEKAEDLR  199 (213)
T ss_dssp             GGCSC----TTHHHHHHHHHCCCEEEEE--CSSSGGGEE
T ss_pred             cCCCc----ccHHHHHHHHHCCCEEEEe--CCCCcccCc
Confidence            96322    2345666777889988887  477776543

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.06  E-value=6.6e-06  Score=59.22  Aligned_cols=93  Identities=12%  Similarity=0.058  Sum_probs=54.7

Q ss_pred             EEEEEEeCCCccccccc----chhh---c-----cCCcEEEEEEECCCh-hhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          70 VKLQIWDTAGQERYRTI----TTAY---Y-----RGAMGFILMYDVTNE-ESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~----~~~~---~-----~~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                      ..+.++||+|...+...    ...+   .     ...+-+++|+|++.. +....+...+..+       .+--++++|.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV-------GLTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH-------CCSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc-------CCceEEEecc
Confidence            46789999995433321    1111   1     245778999998754 3444443333332       2335689999


Q ss_pred             CCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHH
Q psy2300         137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGVF  175 (221)
Q Consensus       137 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (221)
                      |-...-    -.+.......++|+..++.  |++.+++.
T Consensus       162 Det~~~----G~~l~~~~~~~~Pi~~i~~--Gq~p~Dl~  194 (207)
T d1okkd2         162 DGTAKG----GVLIPIVRTLKVPIKFVGV--GEGPDDLQ  194 (207)
T ss_dssp             TSSCCC----TTHHHHHHHHCCCEEEEEC--SSSTTCEE
T ss_pred             CCCCCc----cHHHHHHHHHCCCEEEEeC--CCChHhCc
Confidence            964322    2345556778898887774  66665543

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.00  E-value=1.5e-06  Score=62.76  Aligned_cols=92  Identities=12%  Similarity=0.121  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCcccccc-----cc--hhhcc-----CCcEEEEEEECCCh-hhHHHHHHHHHHHHhhCCCCCcEEEEEeCC
Q psy2300          70 VKLQIWDTAGQERYRT-----IT--TAYYR-----GAMGFILMYDVTNE-ESFTSIQDWITQIKTYSWDNAQVILVGNKC  136 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~-----~~--~~~~~-----~~d~vi~v~d~~~~-~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~  136 (221)
                      +.+.++||+|......     +.  .....     ..+-+++|+|+... +....+...+..       -.+--++++|.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~-------~~~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEA-------VGLTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHH-------SCCCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhc-------cCCceEEEeec
Confidence            3578999999533221     11  11122     24678999998753 333333322222       24556889999


Q ss_pred             CCCCCcccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300         137 DMEDERVISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       137 Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                      |-...    .-.+.......++|+..++  +|++++++
T Consensus       165 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~Dl  196 (211)
T d2qy9a2         165 DGTAK----GGVIFSVADQFGIPIRYIG--VGERIEDL  196 (211)
T ss_dssp             TTCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGGE
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCCcccC
Confidence            96432    2345566777889988887  57777553

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.97  E-value=1.1e-06  Score=64.23  Aligned_cols=23  Identities=30%  Similarity=0.439  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..+|+|++|+|||||+|+|....
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~  121 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPEL  121 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             eEEEECCCCccHHHHHHhhccHh
Confidence            45799999999999999998763

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.80  E-value=4.5e-06  Score=60.13  Aligned_cols=92  Identities=15%  Similarity=0.138  Sum_probs=50.2

Q ss_pred             EEEEEEeCCCcccccccc----hhh--ccCCcEEEEEEECCChhh-HHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCc
Q psy2300          70 VKLQIWDTAGQERYRTIT----TAY--YRGAMGFILMYDVTNEES-FTSIQDWITQIKTYSWDNAQVILVGNKCDMEDER  142 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~----~~~--~~~~d~vi~v~d~~~~~s-~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~  142 (221)
                      ..+.++||+|........    ..+  ....+-+++|.|+..... ...+..+...+       .+--++++|.|-... 
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~-------~~~~~I~TKlDe~~~-  164 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV-------GVTGLVLTKLDGDAR-  164 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT-------CCCEEEEECGGGCSS-
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC-------CCCeeEEeecCcccc-
Confidence            467899999954433211    111  245688999999876532 22222221211       233488999996332 


Q ss_pred             ccCHHHHHHHHHHhCCeEEEEecCCCCCHHHH
Q psy2300         143 VISFERGKHLAESLGVEFFETSAKDNVNVKGV  174 (221)
Q Consensus       143 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  174 (221)
                         .-.+.......+.|+..++  .|+..+++
T Consensus       165 ---~G~~l~~~~~~~~Pi~~i~--~Gq~pedl  191 (207)
T d1ls1a2         165 ---GGAALSARHVTGKPIYFAG--VSEKPEGL  191 (207)
T ss_dssp             ---CHHHHHHHHHHCCCEEEEC--------CC
T ss_pred             ---chHHHHHHHHHCCCEEEEe--CCCChhhc
Confidence               2445666777888887765  34555443

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.60  E-value=1.4e-05  Score=55.96  Aligned_cols=24  Identities=25%  Similarity=0.346  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .=+|+|.|++|||||||+++|...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999864

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.53  E-value=2.2e-05  Score=54.13  Aligned_cols=21  Identities=29%  Similarity=0.289  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -|+|+|.+|||||||+++|..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999999985

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.51  E-value=3e-05  Score=53.69  Aligned_cols=26  Identities=31%  Similarity=0.348  Sum_probs=22.7

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +..++|+|.|++||||||+.+.|...
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            35689999999999999999998754

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.51  E-value=2.2e-05  Score=54.18  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..+|+|+|+|||||||+.++|...
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999998653

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.42  E-value=4e-05  Score=51.87  Aligned_cols=21  Identities=24%  Similarity=0.504  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |++.|+||||||||+++|...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            788999999999999998754

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.37  E-value=5.7e-05  Score=53.43  Aligned_cols=26  Identities=19%  Similarity=0.341  Sum_probs=23.0

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...++|+|+|+|||||||+...|...
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999998864

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.35  E-value=5.3e-05  Score=52.89  Aligned_cols=22  Identities=18%  Similarity=0.339  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999988764

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.34  E-value=6.2e-05  Score=53.10  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .-++|+|+|+|||||||+...|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999998874

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.29  E-value=6.8e-05  Score=52.51  Aligned_cols=23  Identities=17%  Similarity=0.378  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++|+|+|+|||||||+...|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999888754

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.27  E-value=7e-05  Score=51.49  Aligned_cols=22  Identities=32%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -|+|.|++||||||+.++|...
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999754

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=97.26  E-value=0.00019  Score=48.96  Aligned_cols=26  Identities=15%  Similarity=0.180  Sum_probs=22.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +-.-|++-|+-|||||||++.++..-
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            34568999999999999999998654

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.26  E-value=8e-05  Score=52.05  Aligned_cols=23  Identities=22%  Similarity=0.538  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++|+|+|+|||||||+.+.|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998754

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.25  E-value=6.7e-05  Score=52.91  Aligned_cols=24  Identities=21%  Similarity=0.221  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +++|+|.|+|||||||+.+.|...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988643

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.23  E-value=8.2e-05  Score=51.23  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +.|+|.+|||||||+++|...
T Consensus         4 i~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHH
Confidence            469999999999999998753

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.23  E-value=9e-05  Score=51.83  Aligned_cols=24  Identities=17%  Similarity=0.354  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|+|+|+|||||||+...|...
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            378999999999999999998753

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.23  E-value=0.00011  Score=51.85  Aligned_cols=24  Identities=17%  Similarity=0.241  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ...|+|+|+|||||||+.++|...
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999998753

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.22  E-value=8.6e-05  Score=51.80  Aligned_cols=22  Identities=14%  Similarity=0.353  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|+|+|+|||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988864

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.20  E-value=0.00029  Score=52.78  Aligned_cols=63  Identities=21%  Similarity=0.162  Sum_probs=40.6

Q ss_pred             CCeeeEEEEEcCCCCCHHHHHHHHhcCCCCCcc-----ccceeeeeEEEEEEeCCeEEEEEEEeCCCcc
Q psy2300          18 FDYMFKLLIIGNSSVGKTSFLFRYADDSFTSAF-----VSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE   81 (221)
Q Consensus        18 ~~~~~~i~vvG~~~~GKSsli~~l~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~   81 (221)
                      ..+..-|.|+|+.++|||+|+|.|.+..+.-..     ..|.|+-...... .++....+.++||.|..
T Consensus        29 ~~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          29 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBC
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEeccccc
Confidence            345778999999999999999999986632111     1233432222222 13344668899999854

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.15  E-value=5.7e-05  Score=52.92  Aligned_cols=21  Identities=19%  Similarity=0.406  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|+||+||+++|...
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999854

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.14  E-value=0.00011  Score=49.92  Aligned_cols=22  Identities=18%  Similarity=0.428  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|+|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988754

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.12  E-value=0.00012  Score=52.14  Aligned_cols=22  Identities=18%  Similarity=0.274  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .-|+++|.||+|||||.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999874

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.12  E-value=0.00011  Score=50.96  Aligned_cols=22  Identities=23%  Similarity=0.552  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|++.|++|+|||||+..+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999988743

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.12  E-value=0.00016  Score=50.25  Aligned_cols=24  Identities=17%  Similarity=0.210  Sum_probs=20.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ...-|+++|.||||||||++++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446789999999999999999864

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.06  E-value=0.00019  Score=50.63  Aligned_cols=22  Identities=18%  Similarity=0.433  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +.|+|+|+|||||||....|..
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999998865

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.02  E-value=0.00021  Score=50.85  Aligned_cols=22  Identities=23%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+++..
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCChHHHHHHHHhccc
Confidence            7899999999999999998754

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.02  E-value=0.00015  Score=49.81  Aligned_cols=23  Identities=26%  Similarity=0.332  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+|+++|++||||||+.+.|...
T Consensus         2 p~IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999998887543

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.02  E-value=0.00018  Score=49.99  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      |+|.|++||||||++++|..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78899999999999998853

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.02  E-value=0.00019  Score=52.68  Aligned_cols=23  Identities=22%  Similarity=0.186  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +|+|+|+.|||||||++.+.+-.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            48999999999999999888754

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.01  E-value=0.00022  Score=49.21  Aligned_cols=23  Identities=17%  Similarity=0.264  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -+.|.|+|.+||||||+.+.|..
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36788999999999999888764

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.96  E-value=0.00035  Score=48.95  Aligned_cols=27  Identities=26%  Similarity=0.154  Sum_probs=22.7

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .....+-|+|.|++|||||||.++|..
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            334567899999999999999999864

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.94  E-value=0.00022  Score=48.87  Aligned_cols=22  Identities=27%  Similarity=0.445  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +|+++|++||||||+.+.|...
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999998887543

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.93  E-value=0.00024  Score=48.85  Aligned_cols=21  Identities=29%  Similarity=0.403  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|.|++||||||+.+.|...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999988764

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.92  E-value=0.00025  Score=49.83  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|+|++|||||||+++|....
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999997653

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.92  E-value=0.00024  Score=52.45  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++|+|+.|||||||++.+.+-.
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl~   65 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRFY   65 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            58999999999999999887654

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.92  E-value=0.00035  Score=51.22  Aligned_cols=23  Identities=17%  Similarity=0.130  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999888654

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.91  E-value=0.00025  Score=48.66  Aligned_cols=22  Identities=23%  Similarity=0.342  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -++|+|++||||||+.+.|...
T Consensus         8 iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4567999999999999998753

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.91  E-value=0.00031  Score=51.07  Aligned_cols=23  Identities=26%  Similarity=0.358  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++++|+.|||||||++.+.+-.
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl~   50 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGLE   50 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            37999999999999999887654

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.91  E-value=0.0003  Score=51.13  Aligned_cols=23  Identities=26%  Similarity=0.236  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl~   55 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCLD   55 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCcchhhHhccCCC
Confidence            37999999999999999877654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.89  E-value=0.00027  Score=52.11  Aligned_cols=23  Identities=13%  Similarity=0.161  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            48999999999999999888654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.88  E-value=0.00034  Score=49.33  Aligned_cols=24  Identities=17%  Similarity=0.361  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.|+|+|+|||||||+...|...
T Consensus         8 ~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           8 VSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            445889999999999999998763

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.87  E-value=0.00028  Score=49.24  Aligned_cols=21  Identities=24%  Similarity=0.447  Sum_probs=18.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            679999999999999998754

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.86  E-value=0.00029  Score=52.85  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+..
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            38999999999999999998754

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.84  E-value=0.00038  Score=50.76  Aligned_cols=22  Identities=27%  Similarity=0.392  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999998865

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.83  E-value=0.00036  Score=51.56  Aligned_cols=25  Identities=24%  Similarity=0.284  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .--|++.|+||+|||||+.++....
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3458999999999999999987653

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.82  E-value=0.00041  Score=50.64  Aligned_cols=23  Identities=35%  Similarity=0.365  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            37999999999999999988764

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.81  E-value=0.00034  Score=48.00  Aligned_cols=22  Identities=23%  Similarity=0.327  Sum_probs=18.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|.|++||||||+.+.|....
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5677999999999999987653

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.00024  Score=49.82  Aligned_cols=24  Identities=21%  Similarity=0.253  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -..|.++|.|||||||+.+.|...
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999999999998653

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.76  E-value=0.00029  Score=51.07  Aligned_cols=22  Identities=36%  Similarity=0.463  Sum_probs=20.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEECCCCCcHHHHHHHHhcCc
Confidence            7999999999999999999865

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.75  E-value=0.00046  Score=50.50  Aligned_cols=22  Identities=32%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            7999999999999999998865

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.75  E-value=0.00048  Score=50.32  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=20.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+..
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6899999999999999998765

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.74  E-value=0.00039  Score=49.02  Aligned_cols=22  Identities=14%  Similarity=0.326  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -|+|+|+|||||||+..+|...
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998754

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.74  E-value=0.00043  Score=47.71  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=17.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      |+++|++||||||+.+.|..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998864

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.73  E-value=0.00051  Score=50.16  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            37999999999999999888764

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.00038  Score=50.84  Aligned_cols=22  Identities=23%  Similarity=0.224  Sum_probs=20.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+-.
T Consensus        34 ~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          34 YGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHcCCc
Confidence            7999999999999999988754

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.00029  Score=51.33  Aligned_cols=21  Identities=33%  Similarity=0.566  Sum_probs=19.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ++++|+.|||||||++.+.+-
T Consensus        28 ~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            799999999999999999874

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.72  E-value=0.00044  Score=48.67  Aligned_cols=21  Identities=24%  Similarity=0.517  Sum_probs=18.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|||||||+++|...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999998653

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.70  E-value=0.00074  Score=49.56  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +...|++.|+||+|||+|++.+...
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhc
Confidence            4567999999999999999999754

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.69  E-value=0.0024  Score=46.48  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..+++.|++|+||||+++.+...
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            35899999999999999988764

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.65  E-value=0.00048  Score=50.13  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=21.4

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-.++|.|+||+||||+++.+...
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3456899999999999999998764

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.65  E-value=0.00048  Score=50.08  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|.|+||+||||+++.+...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            46899999999999999988754

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00054  Score=48.88  Aligned_cols=21  Identities=19%  Similarity=0.332  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|+|++|||||||+++|...
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            689999999999999999865

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.60  E-value=0.00035  Score=51.60  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +++|+|+.|||||||++-+.+-.
T Consensus        46 ~vaivG~sGsGKSTLl~ll~gl~   68 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPRFY   68 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHhcC
Confidence            58999999999999998777543

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.59  E-value=0.00069  Score=48.35  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.2

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++-|+|.|++|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            37799999999999999998854

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.58  E-value=0.00071  Score=49.93  Aligned_cols=22  Identities=27%  Similarity=0.344  Sum_probs=20.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ++++|+.|||||||++.+.+..
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            6999999999999999998864

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.57  E-value=0.00059  Score=47.41  Aligned_cols=21  Identities=29%  Similarity=0.600  Sum_probs=17.3

Q ss_pred             EE-EEEcCCCCCHHHHHHHHhc
Q psy2300          23 KL-LIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i-~vvG~~~~GKSsli~~l~~   43 (221)
                      || +|.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            55 4579999999999998853

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.56  E-value=0.00062  Score=50.32  Aligned_cols=23  Identities=35%  Similarity=0.366  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++|+|+.|||||||++.+.+-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            37999999999999999998654

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.55  E-value=0.00075  Score=47.54  Aligned_cols=26  Identities=27%  Similarity=0.321  Sum_probs=21.3

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..=++++||+||+|||+++..|...-
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHH
Confidence            34578999999999999998877543

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.52  E-value=0.00062  Score=52.08  Aligned_cols=24  Identities=17%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -+|+|.|++|+|||||++.|+...
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            358999999999999999998654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.47  E-value=0.00073  Score=51.36  Aligned_cols=23  Identities=39%  Similarity=0.501  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.|+++||||||||.|.+++...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            45899999999999999998764

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.00092  Score=49.61  Aligned_cols=25  Identities=32%  Similarity=0.279  Sum_probs=21.0

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..=++++||+||+|||+++..|...
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHH
Confidence            4457899999999999999887654

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.42  E-value=0.0013  Score=46.04  Aligned_cols=27  Identities=19%  Similarity=0.144  Sum_probs=22.7

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      +++-|+|.|.+||||||+.+.|....+
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~~g~   28 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRSWGY   28 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHTTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCC
Confidence            457899999999999999998876543

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.41  E-value=0.0005  Score=50.22  Aligned_cols=23  Identities=35%  Similarity=0.462  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .++++|+.|||||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            48999999999999999998764

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.40  E-value=0.0015  Score=47.91  Aligned_cols=27  Identities=19%  Similarity=0.169  Sum_probs=22.3

Q ss_pred             CeeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          19 DYMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        19 ~~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ...-.++|.|++|+|||++++.+...-
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            344579999999999999999887643

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.38  E-value=0.0008  Score=49.75  Aligned_cols=24  Identities=21%  Similarity=0.155  Sum_probs=19.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-++|.|+||+|||++++.+...
T Consensus        46 ~~~l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          46 NMIYGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EEEEECTTCCSSSHHHHHHHHHHH
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHH
Confidence            334566799999999999998765

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.37  E-value=0.00099  Score=48.69  Aligned_cols=24  Identities=21%  Similarity=0.286  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -.+++.|+||+||||+++.++...
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999998654

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.37  E-value=0.001  Score=47.59  Aligned_cols=24  Identities=29%  Similarity=0.343  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+.|++-|++||||||+...|...
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            467899999999999999988753

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.32  E-value=0.0012  Score=47.68  Aligned_cols=22  Identities=36%  Similarity=0.534  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+++.|++|+||||+++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            5899999999999999988764

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.30  E-value=0.0013  Score=46.85  Aligned_cols=29  Identities=14%  Similarity=0.219  Sum_probs=23.2

Q ss_pred             cCCCeeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          16 QNFDYMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        16 ~~~~~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .......-|.|.|.||||||||.+.|...
T Consensus        19 ~~~~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          19 LRNQRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             HHTSSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HhCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            33345578999999999999999988743

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.21  E-value=0.0013  Score=48.27  Aligned_cols=23  Identities=30%  Similarity=0.442  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.|++.|+||+|||+|++.+...
T Consensus        43 ~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHHH
Confidence            35899999999999999999864

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.17  E-value=0.0015  Score=45.78  Aligned_cols=25  Identities=36%  Similarity=0.551  Sum_probs=21.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..+-|+|-|..||||||+++.|...
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999988754

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.11  E-value=0.0014  Score=48.07  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|++|+|||||++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            578999999999999998864

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.03  E-value=0.0018  Score=47.76  Aligned_cols=23  Identities=26%  Similarity=0.365  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.+++.|+||+|||++++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHHH
Confidence            45899999999999999999854

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.00  E-value=0.0019  Score=47.66  Aligned_cols=25  Identities=24%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-.|++.|+||+|||+|++++....
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CceeEEecCCCCCchHHHHHHHHHh
Confidence            3469999999999999999988743

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.94  E-value=0.0021  Score=45.72  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -|++.|+|||||+|+...|...
T Consensus         5 iI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5778899999999999887653

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.94  E-value=0.002  Score=46.40  Aligned_cols=22  Identities=27%  Similarity=0.523  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|.|++|+||||+++.++..
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHHHH
Confidence            4899999999999999998764

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.93  E-value=0.0021  Score=46.13  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|.|++|+||||+++.+...
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHH
Confidence            35899999999999999988654

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.90  E-value=0.0027  Score=47.96  Aligned_cols=27  Identities=19%  Similarity=0.199  Sum_probs=22.1

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .....+-|+|.|.+|||||||.+.|..
T Consensus        76 ~~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          76 GQRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            344679999999999999999887754

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.81  E-value=0.0024  Score=45.77  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .++|.|++|+||||+++.++..
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            5899999999999999999864

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.81  E-value=0.0028  Score=44.68  Aligned_cols=21  Identities=19%  Similarity=0.336  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999988764

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=95.72  E-value=0.0037  Score=44.37  Aligned_cols=26  Identities=19%  Similarity=0.339  Sum_probs=21.8

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcCCC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~~~   46 (221)
                      .|-|+|.|..||||||+.+.|....+
T Consensus         3 k~iIgitG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           3 RYIVALTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHCCC
Confidence            35689999999999999998876544

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.67  E-value=0.0027  Score=50.53  Aligned_cols=21  Identities=43%  Similarity=0.664  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +|+++||+|||||-|+++|..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999864

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.67  E-value=0.0057  Score=45.58  Aligned_cols=26  Identities=12%  Similarity=0.088  Sum_probs=21.2

Q ss_pred             CCCeeeEEEEEcCCCCCHHHHHHHHh
Q psy2300          17 NFDYMFKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        17 ~~~~~~~i~vvG~~~~GKSsli~~l~   42 (221)
                      .....+-|+|-|.+|||||||...+.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHH
Confidence            34456899999999999999887653

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.65  E-value=0.0027  Score=46.94  Aligned_cols=26  Identities=23%  Similarity=0.226  Sum_probs=22.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +.-.|++.|++|+|||+|++++....
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHHh
Confidence            34569999999999999999998654

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=95.55  E-value=0.0056  Score=43.25  Aligned_cols=24  Identities=21%  Similarity=0.311  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +-|+|.|..||||||+.+.|....
T Consensus         3 ~iIgITG~igSGKStv~~~l~~~G   26 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTDLG   26 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCC
Confidence            678999999999999999886543

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.40  E-value=0.0043  Score=43.90  Aligned_cols=20  Identities=25%  Similarity=0.270  Sum_probs=17.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            77889999999999998764

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.25  E-value=0.0035  Score=48.93  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=18.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ..=++++||+||+|||+++..|..
T Consensus        42 ~k~n~llvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          42 TKNNPVLIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             SCCCCEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCCeEECCCCCCHHHHHHHHHH
Confidence            445579999999999999865543

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.23  E-value=0.18  Score=36.50  Aligned_cols=88  Identities=13%  Similarity=0.149  Sum_probs=52.6

Q ss_pred             EEEEEEeCCCcccc-cccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCC-CCCc-EEEEEeCCCCCCCcccCH
Q psy2300          70 VKLQIWDTAGQERY-RTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSW-DNAQ-VILVGNKCDMEDERVISF  146 (221)
Q Consensus        70 ~~~~i~D~~g~~~~-~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~p-~ivv~nK~Dl~~~~~~~~  146 (221)
                      +.+.++|+|+.-.. ..........+|.++++.+. +..++..+...+..+..... .+.+ .-++.|+.+....    .
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~----~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVANE----Y  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSCC----H
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCCc----c
Confidence            45788999864322 22222334568888887765 56667766666666655442 2333 3478899886443    3


Q ss_pred             HHHHHHHHHhCCeEEE
Q psy2300         147 ERGKHLAESLGVEFFE  162 (221)
Q Consensus       147 ~~~~~~~~~~~~~~~~  162 (221)
                      +..+.+.+..+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            4456666777766543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.20  E-value=0.0058  Score=42.90  Aligned_cols=23  Identities=22%  Similarity=0.192  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -+.|.|+||+|||+|+..+..+.
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46899999999999999887654

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.16  E-value=0.0026  Score=48.56  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhc
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -.|+++|+||+|||+|++++..
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            3699999999999999999864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.08  E-value=0.008  Score=41.38  Aligned_cols=23  Identities=30%  Similarity=0.501  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -|++.|++|+||||+.-.|....
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g   38 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRG   38 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcC
Confidence            48999999999999999988765

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.07  E-value=0.0059  Score=47.18  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .+++.|+||+|||+|...+...
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988753

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.05  E-value=0.0012  Score=46.20  Aligned_cols=19  Identities=16%  Similarity=0.396  Sum_probs=16.8

Q ss_pred             EEEEcCCCCCHHHHHHHHh
Q psy2300          24 LLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~   42 (221)
                      .+|+|+.|||||||+.++.
T Consensus        27 tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          27 TTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHSCCSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3678999999999999975

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.03  E-value=0.0064  Score=43.16  Aligned_cols=20  Identities=15%  Similarity=0.333  Sum_probs=16.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998877654

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.95  E-value=0.0071  Score=43.36  Aligned_cols=23  Identities=17%  Similarity=0.196  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -+.|.|+||+|||+|+..+....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            46899999999999999887654

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.94  E-value=0.007  Score=44.91  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=20.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..-|+|+|+.|+|||||+..+++.
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            456899999999999999998754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.88  E-value=0.0048  Score=44.41  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .|+|-|..||||||+++.|...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999987764

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.84  E-value=0.0097  Score=40.96  Aligned_cols=23  Identities=22%  Similarity=0.486  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -|++.|++|+||||+.-.|....
T Consensus        17 gvli~G~sG~GKS~lal~l~~~G   39 (177)
T d1knxa2          17 GVLLTGRSGIGKSECALDLINKN   39 (177)
T ss_dssp             EEEEEESSSSSHHHHHHHHHTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHcC
Confidence            48999999999999999988765

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=94.82  E-value=0.0049  Score=46.15  Aligned_cols=18  Identities=22%  Similarity=0.403  Sum_probs=16.5

Q ss_pred             EEEcCCCCCHHHHHHHHh
Q psy2300          25 LIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        25 ~vvG~~~~GKSsli~~l~   42 (221)
                      +|+|+.|||||+++.++.
T Consensus        28 vlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          28 AIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEECCTTTCSTHHHHHHH
T ss_pred             EEECCCCCcHHHHHHHHH
Confidence            799999999999999873

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.73  E-value=0.0091  Score=45.20  Aligned_cols=21  Identities=19%  Similarity=0.532  Sum_probs=18.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      +++.|+||+|||.|.+.+...
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            455799999999999998764

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.67  E-value=0.0089  Score=43.15  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|.|+||+|||+|...++.+.
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999998887654

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.62  E-value=0.0096  Score=46.01  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=20.9

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      +.-.++++||+|||||-|.++|..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            456699999999999999999864

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.60  E-value=0.013  Score=44.24  Aligned_cols=24  Identities=25%  Similarity=0.389  Sum_probs=20.3

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-.++++|++|+|||.|.+.|...
T Consensus        52 ~~~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          52 VGSFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCcchhHHHHHHHHhh
Confidence            346899999999999999988653

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.54  E-value=0.01  Score=42.65  Aligned_cols=23  Identities=26%  Similarity=0.504  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      --++|.|+||+|||+|+..+..+
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            45789999999999999888765

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.44  E-value=0.015  Score=44.27  Aligned_cols=25  Identities=16%  Similarity=0.196  Sum_probs=22.5

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|.|=|.-|+||||+++.|...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            4689999999999999999988764

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.40  E-value=0.011  Score=42.41  Aligned_cols=22  Identities=36%  Similarity=0.549  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -|+|-|..||||||+++.|...
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998754

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.40  E-value=0.0048  Score=46.02  Aligned_cols=20  Identities=15%  Similarity=0.393  Sum_probs=15.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q psy2300          23 KLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~   42 (221)
                      -|+|.|.+||||||+.++|.
T Consensus         6 IIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEEESCC---CCTHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHH
Confidence            48999999999999998764

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.38  E-value=0.014  Score=39.81  Aligned_cols=24  Identities=25%  Similarity=0.459  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      .-|++.|++|+||||+.-.+....
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g   39 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRG   39 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcC
Confidence            358999999999999998888765

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.21  E-value=0.013  Score=41.94  Aligned_cols=23  Identities=17%  Similarity=0.131  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      -++|.|++|+|||+|+..+..+-
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~~   58 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVNL   58 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            46899999999999999987654

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.13  E-value=0.013  Score=44.63  Aligned_cols=26  Identities=15%  Similarity=0.267  Sum_probs=22.8

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      ..++|.|=|.-|+||||+++.|...-
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHH
Confidence            46889999999999999999998653

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.12  E-value=0.017  Score=43.84  Aligned_cols=25  Identities=20%  Similarity=0.220  Sum_probs=21.6

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..++|.|=|.-|+||||+++.|...
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             CceEEEEECCcCCCHHHHHHHHHHH
Confidence            5678999999999999999988753

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=94.08  E-value=0.014  Score=45.74  Aligned_cols=24  Identities=21%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      =-|+|.|++|+||||+++.++...
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEEcCCCCCccHHHHHHhhhh
Confidence            448999999999999999988753

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.00  E-value=0.012  Score=41.28  Aligned_cols=24  Identities=21%  Similarity=0.275  Sum_probs=20.4

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .=.+++.|++++|||.|+..++..
T Consensus        53 kn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          53 KNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             CSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHHHHH
Confidence            356899999999999999987754

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.96  E-value=0.016  Score=41.62  Aligned_cols=24  Identities=17%  Similarity=0.099  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      --+.|.|+||+|||+|...++...
T Consensus        38 ~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          38 AITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             EEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999887643

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.94  E-value=0.014  Score=45.39  Aligned_cols=21  Identities=29%  Similarity=0.456  Sum_probs=17.7

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHh
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYA   42 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~   42 (221)
                      .+. +|+|+.|+|||+++.++.
T Consensus        26 ~l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEE-EEECSTTSSHHHHHHHHH
T ss_pred             CEE-EEECCCCCCHHHHHHHHH
Confidence            354 688999999999999974

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.94  E-value=0.016  Score=41.08  Aligned_cols=22  Identities=27%  Similarity=0.519  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      +.+.|++|+|||-|+++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            7899999999999999998653

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.91  E-value=0.017  Score=41.02  Aligned_cols=21  Identities=29%  Similarity=0.240  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhcC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |+|-|..||||||+++.|...
T Consensus         6 I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999888643

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.88  E-value=0.018  Score=40.65  Aligned_cols=22  Identities=18%  Similarity=0.382  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -+++.|++|+||||+++.+...
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHh
Confidence            4899999999999999987653

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.80  E-value=0.018  Score=41.50  Aligned_cols=21  Identities=38%  Similarity=0.403  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .+++.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            378999999999999998754

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.56  E-value=0.023  Score=42.12  Aligned_cols=29  Identities=21%  Similarity=0.221  Sum_probs=18.8

Q ss_pred             hhhhhhhcCCCeeeEEEEEcCCCCCHHHH-HHH
Q psy2300           9 WQKDAADQNFDYMFKLLIIGNSSVGKTSF-LFR   40 (221)
Q Consensus         9 ~~~~~~~~~~~~~~~i~vvG~~~~GKSsl-i~~   40 (221)
                      .|+.....+..   .++|+|.+|+||||. +.+
T Consensus         5 eQ~~av~~~~~---~~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1           5 GQQQAVEFVTG---PCLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             HHHHHHHCCSS---EEEECCCTTSCHHHHHHHH
T ss_pred             HHHHHHhCCCC---CEEEEeeCCccHHHHHHHH
Confidence            34555544322   267899999999975 444

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.47  E-value=0.022  Score=40.41  Aligned_cols=21  Identities=33%  Similarity=0.517  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -+.|.|++|+|||+|+..++.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            468889999999999877653

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=92.85  E-value=0.031  Score=40.91  Aligned_cols=20  Identities=25%  Similarity=0.496  Sum_probs=17.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|.|.||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            57999999999999887764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.81  E-value=0.032  Score=39.95  Aligned_cols=21  Identities=14%  Similarity=0.102  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      .|+|.|..||||||+.+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998864

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=92.79  E-value=0.038  Score=41.21  Aligned_cols=27  Identities=33%  Similarity=0.358  Sum_probs=18.1

Q ss_pred             hhhhhhhcCCCeeeEEEEEcCCCCCHHHHH
Q psy2300           9 WQKDAADQNFDYMFKLLIIGNSSVGKTSFL   38 (221)
Q Consensus         9 ~~~~~~~~~~~~~~~i~vvG~~~~GKSsli   38 (221)
                      .|+.....+. .  .++|.|.+|+||||.+
T Consensus        15 eQ~~~v~~~~-g--~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          15 EQQEAVRTTE-G--PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             HHHHHHHCCS-S--CEEEEECTTSCHHHHH
T ss_pred             HHHHHHhCCC-C--CEEEEecCCccHHHHH
Confidence            3555554332 2  2788999999999753

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=92.56  E-value=0.031  Score=43.78  Aligned_cols=23  Identities=30%  Similarity=0.392  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -+++|+|.+|+|||+++..+..+
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHHH
Confidence            46999999999999998876643

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.45  E-value=0.036  Score=40.43  Aligned_cols=20  Identities=15%  Similarity=0.285  Sum_probs=17.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|.|++|+|||+|+-.+..
T Consensus        32 ~~i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            56999999999999877653

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=92.27  E-value=0.049  Score=40.98  Aligned_cols=23  Identities=30%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -.++++|++|+|||.+.+.|...
T Consensus        54 ~~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          54 GSFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEEBSCSSSSHHHHHHHHHHH
T ss_pred             eEEEEECCCcchHHHHHHHHHHH
Confidence            35788999999999999987643

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.77  E-value=0.051  Score=39.86  Aligned_cols=25  Identities=20%  Similarity=0.242  Sum_probs=21.1

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      ..--+.+.|++++|||+|++.+...
T Consensus       103 k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_         103 KRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            4566889999999999999988764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=91.54  E-value=0.058  Score=39.93  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |++++|++|+|||+|+..+..+
T Consensus        45 r~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          45 RGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHH
T ss_pred             eeeEeCCCCCCHHHHHHHHHHH
Confidence            6899999999999999888764

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=90.98  E-value=0.068  Score=40.95  Aligned_cols=34  Identities=29%  Similarity=0.393  Sum_probs=23.1

Q ss_pred             chhhhhhhhcCCCeeeEEEEEcCCCCCHHHHHHHH
Q psy2300           7 TKWQKDAADQNFDYMFKLLIIGNSSVGKTSFLFRY   41 (221)
Q Consensus         7 ~~~~~~~~~~~~~~~~~i~vvG~~~~GKSsli~~l   41 (221)
                      ..||..+...--... -++|.|+||+|||+++..+
T Consensus       150 ~~~Q~~A~~~al~~~-~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         150 INWQKVAAAVALTRR-ISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             CCHHHHHHHHHHTBS-EEEEECCTTSTHHHHHHHH
T ss_pred             ccHHHHHHHHHHcCC-eEEEEcCCCCCceehHHHH
Confidence            345665555443344 4688999999999987543

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.73  E-value=0.47  Score=33.12  Aligned_cols=76  Identities=12%  Similarity=0.072  Sum_probs=49.6

Q ss_pred             EEEEEEeCCCcccccccchhhccCCcEEEEEEECCChhhHHHHHHHHHHHHhhCCCCCcEE-EEEeCCCCCCCcccCHHH
Q psy2300          70 VKLQIWDTAGQERYRTITTAYYRGAMGFILMYDVTNEESFTSIQDWITQIKTYSWDNAQVI-LVGNKCDMEDERVISFER  148 (221)
Q Consensus        70 ~~~~i~D~~g~~~~~~~~~~~~~~~d~vi~v~d~~~~~s~~~~~~~~~~l~~~~~~~~p~i-vv~nK~Dl~~~~~~~~~~  148 (221)
                      +.+.++|+++.-.  ......+..+|.++++... +..++..+...+..+.+.   +.|++ +|+|+.+..+. ......
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~~---~~~~~giv~N~~~~~~~-~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNP-EISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSDR-DIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECS-CHHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCTT-CCCHHH
T ss_pred             CCEEEEccccccc--ccchhhhhhhhcccccccc-cceecchhhHHHHHHhhh---hhhhhhhhhcccccccc-hhhhHH
Confidence            4578899987532  2333456789999999986 456677777777666654   66755 88999986543 333344


Q ss_pred             HHHH
Q psy2300         149 GKHL  152 (221)
Q Consensus       149 ~~~~  152 (221)
                      .+.+
T Consensus       185 ~~~~  188 (237)
T d1g3qa_         185 AEDV  188 (237)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            4333

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.44  E-value=0.11  Score=33.08  Aligned_cols=23  Identities=9%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             eeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          21 MFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        21 ~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      =+.|.+-|..|+|||+|.++|..
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHHHH
Confidence            38899999999999999998854

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=89.78  E-value=0.1  Score=38.05  Aligned_cols=22  Identities=27%  Similarity=0.347  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -+.|.|++++|||+|+-.++..
T Consensus        56 itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCCcHHHHHHHHHHHH
Confidence            4689999999999998877654

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=88.88  E-value=0.13  Score=37.12  Aligned_cols=23  Identities=30%  Similarity=0.270  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhcC
Q psy2300          22 FKLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        22 ~~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      .-|+|.|++|+||+.+.+.+...
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHHHh
Confidence            45899999999999999888643

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=88.49  E-value=0.12  Score=37.94  Aligned_cols=22  Identities=27%  Similarity=0.591  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |++++|.+|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          70 KIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHH
Confidence            6899999999999998888754

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=87.37  E-value=0.19  Score=35.91  Aligned_cols=20  Identities=30%  Similarity=0.461  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|.|+..+|||++++.+..
T Consensus        44 ~iiTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHHH
Confidence            68999999999999998643

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=86.83  E-value=0.21  Score=35.43  Aligned_cols=20  Identities=40%  Similarity=0.552  Sum_probs=17.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      ++|.|+..+||||+++.+.-
T Consensus        38 ~iiTGpN~~GKSt~lk~i~l   57 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTAL   57 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhHH
Confidence            78999999999999998643

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=86.24  E-value=0.25  Score=33.69  Aligned_cols=22  Identities=23%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhcCC
Q psy2300          24 LLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |+|+|...+|||.+..++....
T Consensus         2 iLVtGGarSGKS~~AE~l~~~~   23 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGDA   23 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCSC
T ss_pred             EEEECCCCccHHHHHHHHHhcC
Confidence            6899999999999999987543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=85.90  E-value=0.24  Score=32.22  Aligned_cols=18  Identities=33%  Similarity=0.480  Sum_probs=14.4

Q ss_pred             EEEcCCCCCHHH-HHHHHh
Q psy2300          25 LIIGNSSVGKTS-FLFRYA   42 (221)
Q Consensus        25 ~vvG~~~~GKSs-li~~l~   42 (221)
                      +++|+-.||||| |++++.
T Consensus         6 ~i~GpMfsGKTteLi~~~~   24 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRLH   24 (139)
T ss_dssp             EEECSTTSCHHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHHH
Confidence            568999999999 666653

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=85.81  E-value=1.6  Score=29.25  Aligned_cols=101  Identities=13%  Similarity=0.204  Sum_probs=54.9

Q ss_pred             CeeeEEEEEcC-CCCCHHHHHHHHhcCCCCCccccceeeeeEEEEEEeCCeEEEEEEEeCCCcc----------------
Q psy2300          19 DYMFKLLIIGN-SSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRHDKRVKLQIWDTAGQE----------------   81 (221)
Q Consensus        19 ~~~~~i~vvG~-~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~----------------   81 (221)
                      ...+||+|+|- .+.|-+ |+..|..+......                 ..+.+.++|.+...                
T Consensus        22 k~~~kV~I~GA~G~Ig~~-l~~~La~g~v~g~~-----------------~~i~L~L~di~~~~~~l~g~~mdl~d~a~~   83 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISNH-LLFKLASGEVFGQD-----------------QPIALKLLGSERSFQALEGVAMELEDSLYP   83 (175)
T ss_dssp             CCCEEEEEETTTSHHHHH-HHHHHHHTTTTCTT-----------------CCEEEEEECCGGGHHHHHHHHHHHHTTTCT
T ss_pred             CCCcEEEEECCCcHHHHH-HHHHHHcCcccCCC-----------------ceEEEEEecCccccchhcchhhhhcccccc
Confidence            35789999995 777865 66667665533221                 12344555554310                


Q ss_pred             -----cccccchhhccCCcEEEEEEECCCh--hhHHH--------HHHHHHHHHhhCCCCCcEEEEEeCCC
Q psy2300          82 -----RYRTITTAYYRGAMGFILMYDVTNE--ESFTS--------IQDWITQIKTYSWDNAQVILVGNKCD  137 (221)
Q Consensus        82 -----~~~~~~~~~~~~~d~vi~v~d~~~~--~s~~~--------~~~~~~~l~~~~~~~~p~ivv~nK~D  137 (221)
                           .........+.++|++|++-.....  ++-.+        ++.+...+.+++.++..++++.|-.|
T Consensus        84 ~~~~~~~~~~~~~~~~~aDvVvi~ag~~rkpg~tR~Dll~~N~~I~k~~~~~i~~~a~~~~~vlvv~NPvd  154 (175)
T d7mdha1          84 LLREVSIGIDPYEVFEDVDWALLIGAKPRGPGMERAALLDINGQIFADQGKALNAVASKNVKVLVVGNPCN  154 (175)
T ss_dssp             TEEEEEEESCHHHHTTTCSEEEECCCCCCCTTCCHHHHHHHHHHHHHHHHHHHHHHSCTTCEEEECSSSHH
T ss_pred             cccCccccccchhhccCCceEEEeeccCCCCCCcHHHHHHHHHHHHHHHHHHHHhhCCCCcEEEEecCcHH
Confidence                 0011122346889999988765431  11111        23344455666544566777777666

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=84.95  E-value=0.2  Score=37.32  Aligned_cols=14  Identities=36%  Similarity=0.565  Sum_probs=12.9

Q ss_pred             EEEcCCCCCHHHHH
Q psy2300          25 LIIGNSSVGKTSFL   38 (221)
Q Consensus        25 ~vvG~~~~GKSsli   38 (221)
                      +++|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            79999999999975

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=84.94  E-value=0.65  Score=36.89  Aligned_cols=88  Identities=15%  Similarity=0.177  Sum_probs=62.7

Q ss_pred             cCCcEEEEEEECC----------------C----hhhHHHHHHHHHHHHhhCCCCCcEEEEEeCCCCCCCcccCHHHHHH
Q psy2300          92 RGAMGFILMYDVT----------------N----EESFTSIQDWITQIKTYSWDNAQVILVGNKCDMEDERVISFERGKH  151 (221)
Q Consensus        92 ~~~d~vi~v~d~~----------------~----~~s~~~~~~~~~~l~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~  151 (221)
                      ...|++++|..+.                |    ...+.++...++.+..+   +.|+||.+|+...+.+.+  .+.+++
T Consensus       317 l~P~~~VlVaTvRALK~HGG~~~~~l~~eNl~Al~~G~~NL~rHIeNi~~f---GlpvVVAIN~F~tDTd~E--i~~i~~  391 (549)
T d1eg7a_         317 FKPDATVIVATVRALKMHGGVPKSDLATENLEALREGFANLEKHIENIGKF---GVPAVVAINAFPTDTEAE--LNLLYE  391 (549)
T ss_dssp             CCCCEEEEEECHHHHHHTTTCCGGGTTSCCHHHHHHHHHHHHHHHHHHHTT---TCCEEEEEECCTTCCHHH--HHHHHH
T ss_pred             CCCceEEEEeehhhhhhcCCCChHHcCcccHHHHHHHHHHHHHHHHhhhhc---CCCeEEEeccCCccchhH--HHHHHH
Confidence            4578888888631                1    33567777778888776   899999999998755443  355677


Q ss_pred             HHHHhCCeEEEEecCCCCCHHHHHHHHHHHHHH
Q psy2300         152 LAESLGVEFFETSAKDNVNVKGVFERLVDIICD  184 (221)
Q Consensus       152 ~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  184 (221)
                      ++...++.+...=++-|+|-.+|-+.+++.+.+
T Consensus       392 ~~~~~g~~~a~~wa~GG~Ga~dLA~~Vv~a~e~  424 (549)
T d1eg7a_         392 LCAKAGAEVALSWAKGGEGGLELARKVLQTLES  424 (549)
T ss_dssp             HTTTSEEEEECCTTTGGGGGHHHHHHHHHHHHH
T ss_pred             HHhhcCcceeeecccCccchHHHHHHHHHHHhc
Confidence            777777655444556678888888888887754

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=84.22  E-value=0.31  Score=35.46  Aligned_cols=22  Identities=27%  Similarity=0.273  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      -+.+.|++++|||+|+..++..
T Consensus        59 itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEecCCccchHHHHHHHHHH
Confidence            4589999999999998877654

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=84.03  E-value=0.22  Score=37.20  Aligned_cols=15  Identities=33%  Similarity=0.501  Sum_probs=13.4

Q ss_pred             EEEEcCCCCCHHHHH
Q psy2300          24 LLIIGNSSVGKTSFL   38 (221)
Q Consensus        24 i~vvG~~~~GKSsli   38 (221)
                      -+|+|.+|+|||||-
T Consensus        17 alffGLSGTGKTTLs   31 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLS   31 (318)
T ss_dssp             EEEEECTTSCHHHHT
T ss_pred             EEEEccCCCCccccc
Confidence            489999999999974

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=83.56  E-value=0.25  Score=36.91  Aligned_cols=14  Identities=36%  Similarity=0.565  Sum_probs=13.1

Q ss_pred             EEEcCCCCCHHHHH
Q psy2300          25 LIIGNSSVGKTSFL   38 (221)
Q Consensus        25 ~vvG~~~~GKSsli   38 (221)
                      +++|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (323)
T d1ii2a1          18 VFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEECCTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            69999999999996

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=83.35  E-value=0.37  Score=35.07  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhc
Q psy2300          23 KLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~   43 (221)
                      -+.|.|++++|||+|+-.++.
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEecCCCcHHHHHHHHHHH
Confidence            458999999999999876664

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=83.04  E-value=0.27  Score=31.39  Aligned_cols=20  Identities=10%  Similarity=0.006  Sum_probs=15.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhc
Q psy2300          24 LLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        24 i~vvG~~~~GKSsli~~l~~   43 (221)
                      .+|.++.|+|||+++-.+..
T Consensus        11 ~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          11 AHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            47799999999998765543

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=82.84  E-value=0.29  Score=35.97  Aligned_cols=22  Identities=36%  Similarity=0.477  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADD   44 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~   44 (221)
                      |++++|.+|+|||+|+..+..+
T Consensus        70 r~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          70 RELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             BCEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEeecCCCCChHHHHHHHHHh
Confidence            5799999999999998776654

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=82.72  E-value=0.41  Score=33.04  Aligned_cols=24  Identities=13%  Similarity=0.094  Sum_probs=21.2

Q ss_pred             eeeEEEEEcCCCCCHHHHHHHHhc
Q psy2300          20 YMFKLLIIGNSSVGKTSFLFRYAD   43 (221)
Q Consensus        20 ~~~~i~vvG~~~~GKSsli~~l~~   43 (221)
                      ....+++-|++|+|||+++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999988775

>d5mdha1 c.2.1.5 (A:1-154) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=80.43  E-value=1.1  Score=29.25  Aligned_cols=25  Identities=16%  Similarity=0.373  Sum_probs=18.0

Q ss_pred             eeeEEEEEc-CCCCCHHHHHHHHhcCC
Q psy2300          20 YMFKLLIIG-NSSVGKTSFLFRYADDS   45 (221)
Q Consensus        20 ~~~~i~vvG-~~~~GKSsli~~l~~~~   45 (221)
                      ..+||+|+| ..++|.+. +..|..+.
T Consensus         2 ~p~KV~IiGA~G~VG~~l-a~~l~~~~   27 (154)
T d5mdha1           2 EPIRVLVTGAAGQIAYSL-LYSIGNGS   27 (154)
T ss_dssp             CCEEEEESSTTSHHHHTT-HHHHHTTT
T ss_pred             CceEEEEECCCCHHHHHH-HHHHHHHH
Confidence            358999999 57899884 44565544

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=80.24  E-value=0.35  Score=35.33  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhcCC
Q psy2300          23 KLLIIGNSSVGKTSFLFRYADDS   45 (221)
Q Consensus        23 ~i~vvG~~~~GKSsli~~l~~~~   45 (221)
                      |++++|.+|+|||+|+..+....
T Consensus        69 r~~Ifg~~g~GKt~l~~~~~~~~   91 (276)
T d1fx0a3          69 RELIIGDRQTGKTAVATDTILNQ   91 (276)
T ss_dssp             BCBEEESSSSSHHHHHHHHHHTC
T ss_pred             eEeeccCCCCChHHHHHHHHhhh
Confidence            57899999999999987765443

>d1mlda1 c.2.1.5 (A:1-144) Malate dehydrogenase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=80.15  E-value=4.4  Score=26.00  Aligned_cols=23  Identities=13%  Similarity=0.472  Sum_probs=17.9

Q ss_pred             EEEEEc-CCCCCHHHHHHHHhcCCC
Q psy2300          23 KLLIIG-NSSVGKTSFLFRYADDSF   46 (221)
Q Consensus        23 ~i~vvG-~~~~GKSsli~~l~~~~~   46 (221)
                      ||+++| ...+| +++...+.....
T Consensus         2 Kv~IiGA~G~VG-~~~A~~l~~~~~   25 (144)
T d1mlda1           2 KVAVLGASGGIG-QPLSLLLKNSPL   25 (144)
T ss_dssp             EEEEETTTSTTH-HHHHHHHHTCTT
T ss_pred             eEEEECCCChHH-HHHHHHHHhCCc
Confidence            899999 58999 557777776654