Psyllid ID: psy11289

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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-------16
Protein Sequence
MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVYRYL
Secondary Structure (PSIPRED)
ccEEccccccccccccccEEEEEEEccEEEEEEEEEcccHHHHHHHHHHHHHcccEEEEEEEcccHHHHHHHHHHHHHHHcccccccccEEEEEEcccccccccccHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHcccccccccccEEEEEEEEEEccEEEEEEEEEEcccccccHHHHHHHHHccEEEEEEEcccHHHHHHHHHHHHHHHHHHccccccEEEEEEcHHHHHHccccHHHHHHHHHHHccEEEEccccccccHHHHHHHHHHHHHHcHHccccccccccc
Coil and Loop (DISEMBL)
mkiesyfvtdydptiedsytkqcviddipARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILrvkdrdefpmlmvgnkadldhqrqvssMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHtkqcknstvyryl
Flexible Loop (DISEMBL)
mkiesyfvtdydptiedsytkqCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHrqilrvkdrdefPMLMVGnkadldhqrqVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVllhtkqcknstvyryl
Low Complexity Region (SEG)
MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVYRYL
Disordered region (IsUnstruct)
****SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNK***************NVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVYR**
Disordered Region (DISOPRED)
MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV*******************
Disordered Region (DISEMBL)
MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVYRYL
Disordered Region (DISPRO)
*KI*SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH*************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVYRYL
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	159	2.2.26 [Sep-21-2011]
P62071	204	Ras-related protein R-Ras	yes	N/A	0.949	0.740	0.769	3e-66
P62070	204	Ras-related protein R-Ras	yes	N/A	0.949	0.740	0.769	3e-66
P04388	192	Ras-like protein 2 OS=Dro	yes	N/A	0.886	0.734	0.829	9e-66
P38976	192	Ras-like protein RAS2 OS=	N/A	N/A	0.886	0.734	0.709	8e-56
P10833	218	Ras-related protein R-Ras	no	N/A	0.924	0.674	0.646	5e-52
P10301	218	Ras-related protein R-Ras	no	N/A	0.924	0.674	0.646	6e-52
D3Z8L7	218	Ras-related protein R-Ras	no	N/A	0.924	0.674	0.646	2e-51
P28775	217	Ras-like protein OS=Lenti	N/A	N/A	0.924	0.677	0.639	5e-51
Q12526	212	Ras-like protein OS=Emeri	yes	N/A	0.955	0.716	0.625	9e-51
O93856	209	Ras-like protein OS=Lacca	N/A	N/A	0.968	0.736	0.610	2e-50

>sp|P62071|RRAS2_MOUSE Ras-related protein R-Ras2 OS=Mus musculus GN=Rras2 PE=1 SV=1

 Score =  250 bits (638), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 117/152 (76%), Positives = 134/152 (88%), Gaps = 1/152 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct: 35  IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct: 95  VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query: 123 ECSAKVRINVDQAFHELVRIV-LLHTKQCKNS 153
           E SAK+R+NVDQAFHELVR++     ++C  S
Sbjct: 155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

It is a plasma membrane-associated GTP-binding protein with GTPase activity. Might transduce growth inhibitory signals across the cell membrane, exerting its effect through an effector shared with the Ras proteins but in an antagonistic fashion.
Mus musculus (taxid: 10090)

>sp|P62070|RRAS2_HUMAN Ras-related protein R-Ras2 OS=Homo sapiens GN=RRAS2 PE=1 SV=1

 Score =  250 bits (638), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 117/152 (76%), Positives = 134/152 (88%), Gaps = 1/152 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct: 35  IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct: 95  VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query: 123 ECSAKVRINVDQAFHELVRIV-LLHTKQCKNS 153
           E SAK+R+NVDQAFHELVR++     ++C  S
Sbjct: 155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

It is a plasma membrane-associated GTP-binding protein with GTPase activity. Might transduce growth inhibitory signals across the cell membrane, exerting its effect through an effector shared with the Ras proteins but in an antagonistic fashion.

Homo sapiens (taxid: 9606)

>sp|P04388|RAS2_DROME Ras-like protein 2 OS=Drosophila melanogaster GN=Ras64B PE=1 SV=2

 Score =  248 bits (634), Expect = 9e-66,   Method: Compositional matrix adjust.
 Identities = 117/141 (82%), Positives = 129/141 (91%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQC IDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 26  IQSYFVTDYDPTIEDSYTKQCNIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 85

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + D +SF+EI KF RQILRVKDRDEFPMLMVGNK DL HQ+QVS  +AQN +R L IPYI
Sbjct: 86  LNDHSSFDEIPKFQRQILRVKDRDEFPMLMVGNKCDLKHQQQVSLEEAQNTSRNLMIPYI 145

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 146 ECSAKLRVNVDQAFHELVRIV 166

May be involved in endocytic processes and/or other transport pathways mediated by vesicle trafficking. May interact functionally with ROP protein. Ras proteins bind GDP/GTP and possess intrinsic GTPase activity.

Drosophila melanogaster (taxid: 7227)

>sp|P38976|RAS2_HYDVU Ras-like protein RAS2 OS=Hydra vulgaris GN=RAS2 PE=2 SV=1

 Score =  215 bits (548), Expect = 8e-56,   Method: Compositional matrix adjust.
 Identities = 100/141 (70%), Positives = 124/141 (87%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+S+FV DYDPTIEDSY KQCVIDD  A LDILDTAGQEEFSAMR++YMR+GEGFLLVFS
Sbjct: 29  IQSHFVQDYDPTIEDSYRKQCVIDDKVAHLDILDTAGQEEFSAMRDEYMRTGEGFLLVFS 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR+SF+EI +FH QILRVKD +EFPM++VGNK+DL+++R VS+ +AQ + R+L++ Y+
Sbjct: 89  VTDRSSFDEIPRFHTQILRVKDIEEFPMILVGNKSDLENERTVSTAEAQELGRKLKVSYL 148

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK RINVD AFH+LVR +
Sbjct: 149 ESSAKQRINVDAAFHDLVRAI 169

Ras proteins bind GDP/GTP and possess intrinsic GTPase activity.

Hydra vulgaris (taxid: 6087)

>sp|P10833|RRAS_MOUSE Ras-related protein R-Ras OS=Mus musculus GN=Rras PE=2 SV=1

 Score =  202 bits (515), Expect = 5e-52,   Method: Compositional matrix adjust.
 Identities = 95/147 (64%), Positives = 118/147 (80%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 50  IQSYFVSDYDPTIEDSYTKICTVDGIPARLDILDTAGQEEFGAMREQYMRAGNGFLLVFA 109

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL++QRQV   +A + +    + Y 
Sbjct: 110 INDRQSFNEVGKLFTQILRVKDRDDFPIVLVGNKADLENQRQVLRSEASSFSASHHMTYF 169

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK+R+NVD+AF +LVR V  + +Q
Sbjct: 170 EASAKLRLNVDEAFEQLVRAVRKYQEQ 196

Regulates the organization of the actin cytoskeleton.

Mus musculus (taxid: 10090)

>sp|P10301|RRAS_HUMAN Ras-related protein R-Ras OS=Homo sapiens GN=RRAS PE=1 SV=1

 Score =  202 bits (515), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 95/147 (64%), Positives = 115/147 (78%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 50  IQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFA 109

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL+ QRQV   +A        + Y 
Sbjct: 110 INDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF 169

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK+R+NVD+AF +LVR V  + +Q
Sbjct: 170 EASAKLRLNVDEAFEQLVRAVRKYQEQ 196

Regulates the organization of the actin cytoskeleton.

Homo sapiens (taxid: 9606)

>sp|D3Z8L7|RRAS_RAT Ras-related protein R-Ras OS=Rattus norvegicus GN=Rras PE=1 SV=1

 Score =  201 bits (510), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 95/147 (64%), Positives = 117/147 (79%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 50  IQSYFVSDYDPTIEDSYTKICTVDGIPARLDILDTAGQEEFGAMREQYMRAGNGFLLVFA 109

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL+ QRQV   +A + +    + Y 
Sbjct: 110 INDRQSFIEVSKLFTQILRVKDRDDFPIVLVGNKADLETQRQVLRSEASSFSASHHMTYF 169

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK+R+NVD+AF +LVR V  + +Q
Sbjct: 170 EASAKLRLNVDEAFEQLVRTVRKYQEQ 196

Regulates the organization of the actin cytoskeleton.

Rattus norvegicus (taxid: 10116)

>sp|P28775|RAS_LENED Ras-like protein OS=Lentinula edodes PE=3 SV=1

 Score =  199 bits (506), Expect = 5e-51,   Method: Compositional matrix adjust.
 Identities = 94/147 (63%), Positives = 120/147 (81%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+S+FV +YDPTIEDSY KQCVIDD  A LD+LDTAGQEE+ AMREQYMR+GEGFLLV+S
Sbjct: 31  IQSHFVDEYDPTIEDSYRKQCVIDDEVALLDVLDTAGQEEYGAMREQYMRTGEGFLLVYS 90

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T RNSFEEI  FH+QILRVKD+D FP+++V NK DL+++RQV   + +++AR     ++
Sbjct: 91  ITSRNSFEEISTFHQQILRVKDQDTFPVVVVANKCDLEYERQVGMNEGRDLARHFGCKFV 150

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAKVRINVDQAF +LVR +  + K+
Sbjct: 151 ETSAKVRINVDQAFQDLVREIRKYNKE 177

Lentinula edodes (taxid: 5353)

>sp|Q12526|RAS_EMENI Ras-like protein OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=rasA PE=2 SV=2

 Score =  198 bits (504), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 95/152 (62%), Positives = 121/152 (79%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+S+FV +YDPTIEDSY KQCVIDD  A LD+LDTAGQEE+SAMREQYMR+GEGFLLV+S
Sbjct: 29  IQSHFVDEYDPTIEDSYRKQCVIDDEVALLDVLDTAGQEEYSAMREQYMRTGEGFLLVYS 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R SFEEI  F +QILRVKD+D FP+++VGNK DLD +R VS  + +++ARQ    +I
Sbjct: 89  ITSRQSFEEIMTFQQQILRVKDKDYFPIIVVGNKCDLDKERVVSEQEGESLARQFGCKFI 148

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQCKNST 154
           E SAK RINV+ AF++LVR +  + K+  N +
Sbjct: 149 ETSAKSRINVENAFYDLVREIRRYNKEMSNPS 180

Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) (taxid: 227321)

>sp|O93856|RAS_LACBI Ras-like protein OS=Laccaria bicolor PE=2 SV=1

 Score =  197 bits (501), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 94/154 (61%), Positives = 122/154 (79%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+S+FV +YDPTIE+SY KQCVIDD  A LD+LDTAGQEE+SAMREQYMR+GEGFLLV+S
Sbjct: 29  IQSHFVDEYDPTIEESYRKQCVIDDEVALLDVLDTAGQEEYSAMREQYMRTGEGFLLVYS 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R SFEEI  F +QILRVKD+D FP+++VGNK DLD +R VS  + +++ARQ    +I
Sbjct: 89  ITSRQSFEEIMTFQQQILRVKDKDYFPIIVVGNKCDLDKERVVSKQEGESLARQFGCKFI 148

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVY 156
           E SAK RINV+ AF++LVR +  + K+  N + +
Sbjct: 149 ETSAKSRINVENAFYDLVREIRRYNKEMSNPSGF 182

Laccaria bicolor (taxid: 29883)

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	159
345493329	202	PREDICTED: ras-like protein 2-like [Naso	0.886	0.698	0.893	2e-70
307186265	199	Ras-like protein 2 [Camponotus floridanu	0.886	0.708	0.872	1e-68
312373448	194	hypothetical protein AND_17430 [Anophele	0.886	0.726	0.872	3e-68
383861964	199	PREDICTED: ras-like protein 2-like [Mega	0.886	0.708	0.879	7e-68
347968602	201	AGAP002812-PA [Anopheles gambiae str. PE	0.886	0.701	0.865	9e-68
170036190	203	ras [Culex quinquefasciatus] gi|16787874	0.886	0.694	0.858	1e-67
157126748	203	ras [Aedes aegypti] gi|108882520|gb|EAT4	0.886	0.694	0.858	1e-67
91087321	200	PREDICTED: similar to ras [Tribolium cas	0.886	0.705	0.851	3e-67
307197653	199	Ras-like protein 2 [Harpegnathos saltato	0.886	0.708	0.865	4e-67
242009194	226	ras, putative [Pediculus humanus corpori	0.886	0.623	0.851	5e-67

>gi|345493329|ref|XP_001604213.2| PREDICTED: ras-like protein 2-like [Nasonia vitripennis]

 Score =  270 bits (689), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 126/141 (89%), Positives = 137/141 (97%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVFS
Sbjct: 38  IQSYFVTDYDPTIEDSYTKQCVIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 97

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD +SF+EI+KFHRQILRVKDRDEFPMLMVGNKADLDHQR VS  +AQN+ARQL+IPYI
Sbjct: 98  VTDHSSFDEIFKFHRQILRVKDRDEFPMLMVGNKADLDHQRAVSVEEAQNLARQLKIPYI 157

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 158 ECSAKLRMNVDQAFHELVRIV 178

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307186265|gb|EFN71928.1| Ras-like protein 2 [Camponotus floridanus]

 Score =  263 bits (673), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 123/141 (87%), Positives = 136/141 (96%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+S+FVTDYDPTIEDSYTKQCVIDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 34  IQSFFVTDYDPTIEDSYTKQCVIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 93

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD +SF+EI KFHRQILRVKDRDEFPMLMVGNKADLDHQR VS  +AQ++ARQL+IPYI
Sbjct: 94  VTDHSSFDEILKFHRQILRVKDRDEFPMLMVGNKADLDHQRSVSIEEAQSIARQLKIPYI 153

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 154 ECSAKLRMNVDQAFHELVRIV 174

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312373448|gb|EFR21191.1| hypothetical protein AND_17430 [Anopheles darlingi]

 Score =  262 bits (670), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 123/141 (87%), Positives = 135/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 28  IQSYFVTDYDPTIEDSYTKQCVIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 87

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD  SF+EIYKFHRQILRVKDRDEFPMLMVGNK+DLDHQR VS  +AQ ++RQL+IPYI
Sbjct: 88  VTDHASFDEIYKFHRQILRVKDRDEFPMLMVGNKSDLDHQRVVSLDEAQQLSRQLKIPYI 147

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+RINVDQAFHELVR+V
Sbjct: 148 ECSAKLRINVDQAFHELVRVV 168

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383861964|ref|XP_003706454.1| PREDICTED: ras-like protein 2-like [Megachile rotundata]

 Score =  261 bits (667), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 124/141 (87%), Positives = 135/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDDIPA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 34  IQSYFVTDYDPTIEDSYTKQCVIDDIPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 93

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD +SF+EI KFHRQILRVKDRDEFPMLMVGNKADLD+ R VS  +AQN+ARQL+IPYI
Sbjct: 94  VTDHSSFDEILKFHRQILRVKDRDEFPMLMVGNKADLDYHRVVSVEEAQNMARQLKIPYI 153

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 154 ECSAKLRMNVDQAFHELVRIV 174

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|347968602|ref|XP_312101.5| AGAP002812-PA [Anopheles gambiae str. PEST] gi|333467928|gb|EAA07515.5| AGAP002812-PA [Anopheles gambiae str. PEST]

 Score =  261 bits (666), Expect = 9e-68,   Method: Compositional matrix adjust.
 Identities = 122/141 (86%), Positives = 134/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 35  IQSYFVTDYDPTIEDSYTKQCVIDDAPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 94

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD  SF+EIYKFH+QILRVKDRDEFPMLMVGNK+DLDHQR VS  +AQ ++RQL+IPYI
Sbjct: 95  VTDHASFDEIYKFHKQILRVKDRDEFPMLMVGNKSDLDHQRVVSLEEAQQLSRQLKIPYI 154

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+RINVDQAFHELVR+V
Sbjct: 155 ECSAKLRINVDQAFHELVRVV 175

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170036190|ref|XP_001845948.1| ras [Culex quinquefasciatus] gi|167878746|gb|EDS42129.1| ras [Culex quinquefasciatus]

 Score =  261 bits (666), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 121/141 (85%), Positives = 135/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 36  IQSYFVTDYDPTIEDSYTKQCVIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 95

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD  SF+E+YKFH+QILRVKDRDEFPMLMVGNK+DLDHQR VS  +AQ ++RQL+IPYI
Sbjct: 96  VTDHASFDEMYKFHKQILRVKDRDEFPMLMVGNKSDLDHQRVVSLEEAQQLSRQLKIPYI 155

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+RINVDQAFHELVR+V
Sbjct: 156 ECSAKLRINVDQAFHELVRVV 176

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157126748|ref|XP_001654734.1| ras [Aedes aegypti] gi|108882520|gb|EAT46745.1| AAEL002119-PA [Aedes aegypti]

 Score =  260 bits (665), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 121/141 (85%), Positives = 135/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 36  IQSYFVTDYDPTIEDSYTKQCVIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 95

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD  SF+E+YKFH+QILRVKDRDEFPMLMVGNK+DLDHQR VS  +AQ ++RQL+IPYI
Sbjct: 96  VTDHASFDEMYKFHKQILRVKDRDEFPMLMVGNKSDLDHQRVVSLEEAQQLSRQLKIPYI 155

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+RINVDQAFHELVR+V
Sbjct: 156 ECSAKLRINVDQAFHELVRVV 176

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91087321|ref|XP_975587.1| PREDICTED: similar to ras [Tribolium castaneum] gi|270009526|gb|EFA05974.1| hypothetical protein TcasGA2_TC008799 [Tribolium castaneum]

 Score =  259 bits (661), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 120/141 (85%), Positives = 134/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDDIPA+LDILDTAGQEEFSAMREQYMRSGEGFLLVFS
Sbjct: 34  IQSYFVTDYDPTIEDSYTKQCVIDDIPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 93

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT+R+SFEE+YKFH+QILRVKDRDEFPMLMVGNK DL+HQR V   +AQ +ARQL+IPYI
Sbjct: 94  VTERSSFEEVYKFHKQILRVKDRDEFPMLMVGNKVDLEHQRVVWQEEAQQLARQLKIPYI 153

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVD AF+ELVR+V
Sbjct: 154 ECSAKMRMNVDNAFYELVRVV 174

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307197653|gb|EFN78832.1| Ras-like protein 2 [Harpegnathos saltator]

 Score =  258 bits (660), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 122/141 (86%), Positives = 133/141 (94%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct: 34  IQSYFVTDYDPTIEDSYTKQCVIDDAPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 93

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD +SF+EI KFH+QILRVKDRDEFPMLMVGNKADLD  R VS  +AQN+ARQL+IPYI
Sbjct: 94  VTDHSSFDEILKFHKQILRVKDRDEFPMLMVGNKADLDLHRSVSVEEAQNMARQLKIPYI 153

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 154 ECSAKLRMNVDQAFHELVRIV 174

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242009194|ref|XP_002425376.1| ras, putative [Pediculus humanus corporis] gi|212509170|gb|EEB12638.1| ras, putative [Pediculus humanus corporis]

 Score =  258 bits (659), Expect = 5e-67,   Method: Compositional matrix adjust.
 Identities = 120/141 (85%), Positives = 134/141 (95%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTKQCVIDDI A+LDILDTAGQEEFSAMREQYMRSGEGFLLVFS
Sbjct: 61  IQSYFVSDYDPTIEDSYTKQCVIDDITAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 120

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SF+E+YKFH+QILRVKDRDEFPMLMVGNKADL+H R VS+ DAQ +++ LR+PYI
Sbjct: 121 VTDRASFDEMYKFHKQILRVKDRDEFPMLMVGNKADLEHHRSVSTADAQRLSQDLRVPYI 180

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK+R+NVDQAFHELVRIV
Sbjct: 181 ECSAKLRMNVDQAFHELVRIV 201

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

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	159
UNIPROTKB|A5PKL2	204	RRAS2 "Uncharacterized protein	0.949	0.740	0.776	2.4e-60
UNIPROTKB|P62070	204	RRAS2 "Ras-related protein R-R	0.949	0.740	0.776	2.4e-60
MGI|MGI:1914172	204	Rras2 "related RAS viral (r-ra	0.949	0.740	0.776	2.4e-60
RGD|1310793	204	Rras2 "related RAS viral (r-ra	0.949	0.740	0.776	2.4e-60
UNIPROTKB|Q5ZIW8	203	RRAS2 "Uncharacterized protein	0.949	0.743	0.776	3.9e-60
UNIPROTKB|F1P9Z4	175	RRAS2 "Uncharacterized protein	0.949	0.862	0.769	3.9e-60
UNIPROTKB|B7Z5Z2	210	RRAS2 "Ras-related protein R-R	0.949	0.719	0.769	3.9e-60
UNIPROTKB|E9PK85	166	RRAS2 "Ras-related protein R-R	0.880	0.843	0.821	3.9e-60
UNIPROTKB|F1M0V3	173	Rras2 "Protein Rras2" [Rattus	0.943	0.867	0.774	6.4e-60
FB|FBgn0003206	192	Ras64B "Ras oncogene at 64B" [	0.886	0.734	0.829	8.1e-60

UNIPROTKB|A5PKL2 RRAS2 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 618 (222.6 bits), Expect = 2.4e-60, P = 2.4e-60
 Identities = 118/152 (77%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    35 IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    95 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

GO:0030335 "positive regulation of cell migration" evidence=IEA

GO:0007265 "Ras protein signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|P62070 RRAS2 "Ras-related protein R-Ras2" [Homo sapiens (taxid:9606)]

 Score = 618 (222.6 bits), Expect = 2.4e-60, P = 2.4e-60
 Identities = 118/152 (77%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    35 IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    95 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0007265 "Ras protein signal transduction" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005783 "endoplasmic reticulum" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

MGI|MGI:1914172 Rras2 "related RAS viral (r-ras) oncogene homolog 2" [Mus musculus (taxid:10090)]

 Score = 618 (222.6 bits), Expect = 2.4e-60, P = 2.4e-60
 Identities = 118/152 (77%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    35 IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    95 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IDA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0007265 "Ras protein signal transduction" evidence=IDA

GO:0009987 "cellular process" evidence=IDA;IPI

GO:0016020 "membrane" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=IGI

RGD|1310793 Rras2 "related RAS viral (r-ras) oncogene homolog 2" [Rattus norvegicus (taxid:10116)]

 Score = 618 (222.6 bits), Expect = 2.4e-60, P = 2.4e-60
 Identities = 118/152 (77%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    35 IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 94

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    95 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 154

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   155 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 186

GO:0003674 "molecular_function" evidence=ND

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005622 "intracellular" evidence=IEA;ISO

GO:0007265 "Ras protein signal transduction" evidence=IEA;ISO

GO:0008150 "biological_process" evidence=ND

GO:0009987 "cellular process" evidence=ISO

GO:0016020 "membrane" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=IEA;ISO

UNIPROTKB|Q5ZIW8 RRAS2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 118/152 (77%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQCVID+  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    34 IQSYFVTDYDPTIEDSYTKQCVIDERAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 93

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM++VGNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    94 VTDRGSFEEIYKFQRQILRVKDRDEFPMILVGNKADLDHQRQVTQEEGQQLARQLKVTYM 153

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   154 EASAKIRLNVDQAFHELVRVIRKFQEQECPPS 185

GO:0003924 "GTPase activity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0007265 "Ras protein signal transduction" evidence=IEA

GO:0030335 "positive regulation of cell migration" evidence=IEA

UNIPROTKB|F1P9Z4 RRAS2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 117/152 (76%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             ++SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:     6 LQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 65

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:    66 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 125

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   126 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 157

GO:0030335 "positive regulation of cell migration" evidence=IEA

GO:0007265 "Ras protein signal transduction" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|B7Z5Z2 RRAS2 "Ras-related protein R-Ras2" [Homo sapiens (taxid:9606)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 117/152 (76%), Positives = 134/152 (88%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             ++SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct:    41 LQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 100

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct:   101 VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 160

Query:   123 ECSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
             E SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   161 EASAKIRMNVDQAFHELVRVIRKFQEQECPPS 192

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|E9PK85 RRAS2 "Ras-related protein R-Ras2" [Homo sapiens (taxid:9606)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 115/140 (82%), Positives = 129/140 (92%)

Query:     4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
             ESYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFSV
Sbjct:    17 ESYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSV 76

Query:    64 TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
             TDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+E
Sbjct:    77 TDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYME 136

Query:   124 CSAKVRINVDQAFHELVRIV 143
              SAK+R+NVDQAFHELVR++
Sbjct:   137 ASAKIRMNVDQAFHELVRVI 156

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

UNIPROTKB|F1M0V3 Rras2 "Protein Rras2" [Rattus norvegicus (taxid:10116)]

 Score = 614 (221.2 bits), Expect = 6.4e-60, P = 6.4e-60
 Identities = 117/151 (77%), Positives = 133/151 (88%)

Query:     4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
             +SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFSV
Sbjct:     5 QSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSV 64

Query:    64 TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
             TDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+E
Sbjct:    65 TDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYME 124

Query:   124 CSAKVRINVDQAFHELVRIVLLHTKQ-CKNS 153
              SAK+R+NVDQAFHELVR++    +Q C  S
Sbjct:   125 ASAKIRMNVDQAFHELVRVIRKFQEQECPPS 155

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

FB|FBgn0003206 Ras64B "Ras oncogene at 64B" [Drosophila melanogaster (taxid:7227)]

 Score = 613 (220.8 bits), Expect = 8.1e-60, P = 8.1e-60
 Identities = 117/141 (82%), Positives = 129/141 (91%)

Query:     3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             I+SYFVTDYDPTIEDSYTKQC IDD+PA+LDILDTAGQEEFSAMREQYMRSGEGFLLVF+
Sbjct:    26 IQSYFVTDYDPTIEDSYTKQCNIDDVPAKLDILDTAGQEEFSAMREQYMRSGEGFLLVFA 85

Query:    63 VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
             + D +SF+EI KF RQILRVKDRDEFPMLMVGNK DL HQ+QVS  +AQN +R L IPYI
Sbjct:    86 LNDHSSFDEIPKFQRQILRVKDRDEFPMLMVGNKCDLKHQQQVSLEEAQNTSRNLMIPYI 145

Query:   123 ECSAKVRINVDQAFHELVRIV 143
             ECSAK+R+NVDQAFHELVRIV
Sbjct:   146 ECSAKLRVNVDQAFHELVRIV 166

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

GO:0019003 "GDP binding" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

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

GO:0005525 "GTP binding" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016020 "membrane" 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)
P38976	RAS2_HYDVU	No assigned EC number	0.7092	0.8867	0.7343	N/A	N/A
P03967	RASD_DICDI	No assigned EC number	0.6115	0.8742	0.7433	yes	N/A
P08647	RAS_SCHPO	No assigned EC number	0.5753	0.9182	0.6666	yes	N/A
P0CQ42	RAS_CRYNJ	No assigned EC number	0.5850	0.9245	0.6805	yes	N/A
P04388	RAS2_DROME	No assigned EC number	0.8297	0.8867	0.7343	yes	N/A
P62071	RRAS2_MOUSE	No assigned EC number	0.7697	0.9496	0.7401	yes	N/A
P62070	RRAS2_HUMAN	No assigned EC number	0.7697	0.9496	0.7401	yes	N/A
Q12526	RAS_EMENI	No assigned EC number	0.625	0.9559	0.7169	yes	N/A
P01119	RAS1_YEAST	No assigned EC number	0.6453	0.8867	0.4563	yes	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	159
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	3e-96
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	2e-89
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	5e-89
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	6e-75
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-74
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	2e-72
pfam00071	162	pfam00071, Ras, Ras family	2e-68
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	4e-56
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	2e-54
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	4e-54
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	1e-52
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-52
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	2e-50
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	2e-48
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	9e-42
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	3e-39
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	3e-38
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	6e-36
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	3e-30
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	5e-30
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	8e-30
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	5e-29
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	7e-29
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	9e-29
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-27
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-27
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	7e-27
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-26
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	2e-26
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	5e-25
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	9e-25
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-24
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	6e-23
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	8e-23
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	9e-23
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-22
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	4e-22
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	4e-22
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-22
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	5e-22
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	2e-21
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	5e-21
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	6e-21
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	5e-20
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	6e-20
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	8e-20
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-19
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-19
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	4e-19
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	4e-19
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	1e-18
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	2e-18
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	5e-18
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	5e-18
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	1e-17
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	3e-17
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-17
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	2e-16
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-16
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	3e-16
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	3e-16
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	4e-16
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	7e-16
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-15
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	2e-15
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	1e-14
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	4e-14
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-13
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-13
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	4e-13
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	3e-12
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	5e-12
pfam08477	116	pfam08477, Miro, Miro-like protein	3e-11
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	3e-11
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	7e-11
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-10
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	8e-10
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	2e-09
cd04103	158	cd04103, Centaurin_gamma, Centaurin gamma (CENTG)	5e-09
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	1e-08
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	3e-08
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	9e-08
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	6e-07
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	7e-07
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	2e-06
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	3e-05
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	6e-05
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	8e-05
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	3e-04
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	0.003

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

 Score =  274 bits (703), Expect = 3e-96
 Identities = 114/141 (80%), Positives = 128/141 (90%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQC ID   ARLDILDTAGQEEFSAMREQYMR+GEGFLLVFS
Sbjct: 23  IQSYFVTDYDPTIEDSYTKQCEIDGQWARLDILDTAGQEEFSAMREQYMRTGEGFLLVFS 82

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SFEE+ KFH QILRVKDRDEFPM++VGNKADL+HQRQVS  + Q +ARQL+IPYI
Sbjct: 83  VTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRQVSREEGQELARQLKIPYI 142

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R+NVD+AFH+LVR++
Sbjct: 143 ETSAKDRVNVDKAFHDLVRVI 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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  257 bits (659), Expect = 2e-89
 Identities = 91/141 (64%), Positives = 114/141 (80%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+ +FV DYDPTIEDSY KQ  ID     LDILDTAGQEEFSAMR+QYMR+GEGFLLV+S
Sbjct: 21  IQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYS 80

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TDR SFEEI KF  QILRVKDRD+ P+++VGNK DL+ +R VS+ + + +ARQ   P++
Sbjct: 81  ITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFL 140

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R+NVD+AF++LVR +
Sbjct: 141 ETSAKERVNVDEAFYDLVREI 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|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  256 bits (656), Expect = 5e-89
 Identities = 90/141 (63%), Positives = 115/141 (81%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++ +FV +YDPTIEDSY KQ  ID     LDILDTAGQEEFSAMR+QYMR+GEGFLLV+S
Sbjct: 23  VQGHFVDEYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYS 82

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TDR SFEEI KF  QILRVKDRD+ P+++VGNK DL+++R VS+ + + +ARQ   P++
Sbjct: 83  ITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLENERVVSTEEGKELARQWGCPFL 142

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK RINVD+AF++LVR +
Sbjct: 143 ETSAKERINVDEAFYDLVREI 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|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  220 bits (563), Expect = 6e-75
 Identities = 78/139 (56%), Positives = 107/139 (76%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   FV +YDPTIEDSY KQ V+D     LDILDTAGQEEFSAMR+QY+R+G+GF+LV+S
Sbjct: 20  VSGEFVEEYDPTIEDSYRKQIVVDGETYTLDILDTAGQEEFSAMRDQYIRNGDGFILVYS 79

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R SFEEI     QILRVKD+++ P+++VGNK DL+++RQVS+ + + +A +   P++
Sbjct: 80  ITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENERQVSTEEGEALAEEWGCPFL 139

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK  IN+D+ F+ LVR
Sbjct: 140 ETSAKTNINIDELFNTLVR 158

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

 Score =  219 bits (560), Expect = 2e-74
 Identities = 83/139 (59%), Positives = 105/139 (75%), Gaps = 1/139 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 22  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +  R SFE+I+ +  QI RVKD D+ PM++VGNK DL   R VS+   Q++A+   IPYI
Sbjct: 82  INSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVSTRQGQDLAKSYGIPYI 140

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK R  V++AF+ LVR
Sbjct: 141 ETSAKTRQGVEEAFYTLVR 159

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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score =  215 bits (549), Expect = 2e-72
 Identities = 89/141 (63%), Positives = 116/141 (82%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++F+ +YDPTIEDSY KQCVID+    LDILDTAGQEE+SAMR+QYMR+G+GFL V+S
Sbjct: 26  IQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYS 85

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R+SFEEI  F  QILRVKD+D  PM++VGNK DLD +RQVS+ + Q +A+   IP++
Sbjct: 86  ITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFL 145

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R+NVD+AF+ELVR +
Sbjct: 146 ETSAKQRVNVDEAFYELVREI 166

Length = 189

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

 Score =  204 bits (521), Expect = 2e-68
 Identities = 64/143 (44%), Positives = 94/143 (65%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            ++ F  +Y PTI  D YTK   +D    +L I DTAGQE F A+R  Y R  +GFLLV+
Sbjct: 20  TQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRALRPLYYRGAQGFLLVY 79

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R+SFE + K+  +ILR  D +  P+++VGNK DL+ QR VS+ + + +A++L +P+
Sbjct: 80  DITSRDSFENVKKWLEEILRHAD-ENVPIVLVGNKCDLEDQRVVSTEEGEALAKELGLPF 138

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SAK   NV++AF EL R +L
Sbjct: 139 METSAKTNENVEEAFEELAREIL 161

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

 Score =  172 bits (439), Expect = 4e-56
 Identities = 76/135 (56%), Positives = 100/135 (74%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    +L+ILDTAGQE+++A+R+ Y RSGEGFLLVFS+TD 
Sbjct: 25  FVEDYEPTKADSYRKKVVLDGEEVQLNILDTAGQEDYAAIRDNYFRSGEGFLLVFSITDM 84

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF  + +F  QILRVK+ D  P+L+VGNK DL+ +RQVS  +A N+A Q  + Y+E SA
Sbjct: 85  ESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKRQVSVEEAANLAEQWGVNYVETSA 144

Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +LVR
Sbjct: 145 KTRANVDKVFFDLVR 159

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

 Score =  170 bits (431), Expect = 2e-54
 Identities = 73/154 (47%), Positives = 107/154 (69%), Gaps = 3/154 (1%)

Query: 5   SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT 64
           ++FV  YDPTIEDSY KQ V+D  P  L++LDTAGQEE++A+R+Q++R GEGF+LV+S+T
Sbjct: 22  NHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSIT 81

Query: 65  DRNSFEEIYKFHRQILRVKDRDE--FPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
            R++FE + +F  QI RVKD      P+++VGNK D  ++R+VS+ +   +AR+L   +I
Sbjct: 82  SRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFI 141

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQCKNSTVY 156
           E SAK  +NV++AF+ LVR  L   +Q       
Sbjct: 142 EASAKTNVNVERAFYTLVR-ALRQQRQGGQGPKG 174

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score =  168 bits (426), Expect = 4e-54
 Identities = 73/143 (51%), Positives = 102/143 (71%), Gaps = 1/143 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +++ F+  YDPTIEDSY KQ  ID     L+ILDTAG E+F+AMRE Y++SG+GFLLV+S
Sbjct: 22  VQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYS 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           VT   S  E+ +   Q+LR+KD D  PM++VGNKADL+  RQVS  D  ++++Q   +P+
Sbjct: 82  VTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPF 141

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
            E SA+ R NVD+ F +LVR ++
Sbjct: 142 YETSARKRTNVDEVFIDLVRQII 164

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

 Score =  164 bits (416), Expect = 1e-52
 Identities = 72/140 (51%), Positives = 102/140 (72%), Gaps = 1/140 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ Y+++G+GF LV+S
Sbjct: 22  VQGIFVDKYDPTIEDSYRKQIEVDCQQCMLEILDTAGTEQFTAMRDLYIKNGQGFALVYS 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           +T + SF ++     QILRVKD ++ PM++VGNK DL+ +R VS  + QN+ARQ    P+
Sbjct: 82  ITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVSKEEGQNLARQWGNCPF 141

Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK +INVD+ F++LVR
Sbjct: 142 LETSAKSKINVDEIFYDLVR 161

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|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 =  163 bits (414), Expect = 3e-52
 Identities = 74/139 (53%), Positives = 101/139 (72%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I   F   +DPTIED+Y  Q  ID+ PA LDILDTAGQ EF+AMR+QYMR GEGF++ +S
Sbjct: 23  ISHSFPDYHDPTIEDAYKTQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYS 82

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR+SF+E  +F   I RV+  ++ P+++VGNK DL+ QRQV++ + +N+AR+   P+ 
Sbjct: 83  VTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQQRQVTTEEGRNLAREFNCPFF 142

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SA +R  +D AFH LVR
Sbjct: 143 ETSAALRFYIDDAFHGLVR 161

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

 Score =  158 bits (401), Expect = 2e-50
 Identities = 69/139 (49%), Positives = 101/139 (72%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF+LV+S
Sbjct: 22  VQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYS 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T +++F ++     QILRVKD ++ PM++VGNK DL+ +R V     QN+ARQ    ++
Sbjct: 82  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFL 141

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK +INV++ F++LVR
Sbjct: 142 ETSAKAKINVNEIFYDLVR 160

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

 Score =  153 bits (389), Expect = 2e-48
 Identities = 58/139 (41%), Positives = 100/139 (71%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+  YDPTIED Y K+  +D  P+ L+ILDTAG E+F++MR+ Y+++G+GF++V+S
Sbjct: 22  VSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYS 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + ++ +F++I     QI+RVK  ++ P+++VGNK DL+ +R+VSS + + +A +   P++
Sbjct: 82  LVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFM 141

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK +  V++ F E+VR
Sbjct: 142 ETSAKSKTMVNELFAEIVR 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|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  136 bits (345), Expect = 9e-42
 Identities = 53/136 (38%), Positives = 79/136 (58%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +Y  TI  D  +K   +D    +L I DTAGQE F ++   Y R   G +LV+ VT+
Sbjct: 25  FSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSYYRGAHGAILVYDVTN 84

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE + K+  ++         P+++VGNK+DL+ +RQVS+ +AQ  A++  + + E S
Sbjct: 85  RESFENLDKWLNELKEYAP-PNIPIILVGNKSDLEDERQVSTEEAQQFAKENGLLFFETS 143

Query: 126 AKVRINVDQAFHELVR 141
           AK   NVD+AF  L R
Sbjct: 144 AKTGENVDEAFESLAR 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|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  130 bits (329), Expect = 3e-39
 Identities = 52/139 (37%), Positives = 88/139 (63%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E +FV  Y PTIE++++K          L+I+DTAGQ+E+S + ++Y     G++LV+S
Sbjct: 22  VEGHFVESYYPTIENTFSKIITYKGQEYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYS 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT R SFE +   + +IL +  ++  P+++VGNK+DL  +RQVS+ + + +A      ++
Sbjct: 82  VTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHMERQVSAEEGKKLAESWGAAFL 141

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK   NV++AF  L+ 
Sbjct: 142 ESSAKENENVEEAFELLIE 160

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  127 bits (322), Expect = 3e-38
 Identities = 54/139 (38%), Positives = 80/139 (57%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  TK   +D    +L I DTAGQE F ++   Y R   G LLV+ +T+
Sbjct: 25  FSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITN 84

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE +  + +++      +   +++VGNK+DL+ QRQVS  +A+  A +  +P+ E S
Sbjct: 85  RESFENLENWLKELREYASPN-VVIMLVGNKSDLEEQRQVSREEAEAFAEEHGLPFFETS 143

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++AF EL R +L
Sbjct: 144 AKTNTNVEEAFEELAREIL 162

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  121 bits (306), Expect = 6e-36
 Identities = 57/141 (40%), Positives = 86/141 (60%), Gaps = 4/141 (2%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA--MREQYMRSGEGFLLVFSVT 64
           F+ +Y+P +E  Y++Q  ID     L+I DT GQ++       E+ +R  +GF+LV+S+T
Sbjct: 24  FIGEYEPNLESLYSRQVTIDGEQVSLEIQDTPGQQQNEDPESLERSLRWADGFVLVYSIT 83

Query: 65  DRNSFEEIYKFHRQILRVKDRD-EFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           DR+SF+ + +  + I  +K RD E P+++VGNKADL H RQVS+ + Q +A +L   + E
Sbjct: 84  DRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHSRQVSTEEGQKLALELGCLFFE 143

Query: 124 CSAKVRIN-VDQAFHELVRIV 143
            SA      V   FHEL R V
Sbjct: 144 VSAAENYLEVQNVFHELCREV 164

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|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  107 bits (269), Expect = 3e-30
 Identities = 57/143 (39%), Positives = 80/143 (55%), Gaps = 5/143 (3%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  TK+  +DD    L I DTAGQE F ++   + R  +  +LV+ VT+
Sbjct: 25  FSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTN 84

Query: 66  RNSFEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQN-VARQLRIPY 121
             SFE +  +  + L     +D + FP +++GNK DL+ +RQVS+  AQ     +  IPY
Sbjct: 85  PKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCKSKGNIPY 144

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
            E SAK  INVDQAF  + R+ L
Sbjct: 145 FETSAKEAINVDQAFETIARLAL 167

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

 Score =  106 bits (268), Expect = 5e-30
 Identities = 45/150 (30%), Positives = 79/150 (52%), Gaps = 17/150 (11%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMRE-QYMRSGEGFLLVFSVTD 65
           F T+Y PT+ D+Y+    +D     L + DTAGQEE+  +R   Y ++ + FLL FSV  
Sbjct: 25  FPTEYVPTVFDNYSANVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPQT-DVFLLCFSVDS 83

Query: 66  RNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-----------DHQRQVSSMDAQNV 113
            +SFE +  K++ +I         P+++VG K DL             Q+ ++  + + +
Sbjct: 84  PSSFENVKTKWYPEIKHYCPN--VPIILVGTKIDLRDDGNTLKKLEKKQKPITPEEGEKL 141

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRI 142
           A+++  + Y+ECSA  +  + + F E +R 
Sbjct: 142 AKEIGAVKYMECSALTQEGLKEVFDEAIRA 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|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score =  108 bits (271), Expect = 8e-30
 Identities = 56/142 (39%), Positives = 74/142 (52%), Gaps = 9/142 (6%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PTIED + K   I     +LDILDT+G   F AMR   + +G+ F+LVFS+ +R
Sbjct: 25  FEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNR 84

Query: 67  NSFEEIYKFHRQILRVKDRD--------EFPMLMVGNKADLDHQRQVSSMDA-QNVARQL 117
            SFEE+ +   QIL  K           + PM++ GNKAD D  R+V   +  Q V    
Sbjct: 85  ESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDE 144

Query: 118 RIPYIECSAKVRINVDQAFHEL 139
              Y E SAK   N+D+ F  L
Sbjct: 145 NCAYFEVSAKKNSNLDEMFRAL 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 =  104 bits (262), Expect = 5e-29
 Identities = 49/136 (36%), Positives = 80/136 (58%), Gaps = 1/136 (0%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   +  T+E+ ++K+  +  +   +DILDT+G   F AMR+  +++G+ F LV+SV D 
Sbjct: 24  FEPKHRRTVEELHSKEYEVAGVKVTIDILDTSGSYSFPAMRKLSIQNGDAFALVYSVDDP 83

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECS 125
            SFEE+ +   +IL VK+    P+++VGNK D   +RQV + DA +         ++E S
Sbjct: 84  ESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAERQVEAADALSTVELDWNNGFVEAS 143

Query: 126 AKVRINVDQAFHELVR 141
           AK   NV + F EL++
Sbjct: 144 AKDNENVTEVFKELLQ 159

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

 Score =  103 bits (260), Expect = 7e-29
 Identities = 53/142 (37%), Positives = 75/142 (52%), Gaps = 2/142 (1%)

Query: 4   ESYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  F   +  TI  D   +   +D    +L I DTAGQE F  +   Y R   G +LV+ 
Sbjct: 25  EDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTSYYRGAMGIILVYD 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TD  SFE I  + R I      D   ML VGNK D++ +R VS  + + +AR+  I ++
Sbjct: 85  ITDEKSFENIKNWMRNIDEHASEDVERML-VGNKCDMEEKRVVSKEEGEALAREYGIKFL 143

Query: 123 ECSAKVRINVDQAFHELVRIVL 144
           E SAK  INV++AF  L + +L
Sbjct: 144 ETSAKANINVEEAFLTLAKDIL 165

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

 Score =  103 bits (258), Expect = 9e-29
 Identities = 48/136 (35%), Positives = 73/136 (53%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PTIED+Y +          L I DT G  +F AM+   +  G  F+LV+S+T +
Sbjct: 26  FRESYIPTIEDTYRQVISCSKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSK 85

Query: 67  NSFEEIYKFHRQILRVK--DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC 124
            S EE+   +  I  +K  + ++ P+++VGNK D    R+VSS +   +AR     ++E 
Sbjct: 86  QSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESPSREVSSSEGAALARTWNCAFMET 145

Query: 125 SAKVRINVDQAFHELV 140
           SAK   NV + F EL+
Sbjct: 146 SAKTNHNVQELFQELL 161

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 99.7 bits (249), Expect = 2e-27
 Identities = 49/140 (35%), Positives = 73/140 (52%), Gaps = 2/140 (1%)

Query: 3   IESYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F  D   TI  D   K   +D    +L I DTAGQE F  +   Y R  +G +LV+
Sbjct: 21  TDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY 80

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VT R++F+ +  +  ++       +   ++VGNK D +  R+V+  + Q  AR+  + +
Sbjct: 81  DVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKE-NREVTREEGQKFARKHNMLF 139

Query: 122 IECSAKVRINVDQAFHELVR 141
           IE SAK RI V QAF ELV 
Sbjct: 140 IETSAKTRIGVQQAFEELVE 159

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

 Score = 99.6 bits (249), Expect = 3e-27
 Identities = 42/121 (34%), Positives = 70/121 (57%), Gaps = 1/121 (0%)

Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   ID    +  I DTAGQE + A+   Y R   G LLV+ +T +++FE + ++ ++ 
Sbjct: 42  TRTIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKSTFENVERWLKE- 100

Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV++AF +L
Sbjct: 101 LRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQL 160

Query: 140 V 140
           +
Sbjct: 161 L 161

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

 Score = 98.6 bits (246), Expect = 7e-27
 Identities = 43/117 (36%), Positives = 67/117 (57%), Gaps = 1/117 (0%)

Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 46  LDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYAS 105

Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
            +    L+VGNK DL  ++ V   +A+  A +L IP++E SAK   NV++AF  + R
Sbjct: 106 EN-VNKLLVGNKCDLTDKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAR 161

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|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score = 97.7 bits (244), Expect = 1e-26
 Identities = 41/132 (31%), Positives = 76/132 (57%), Gaps = 2/132 (1%)

Query: 14  TIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI 72
           T + S + K   I      L I DTAGQE + A+   Y R  +G +LV+ +TD +SF+++
Sbjct: 32  TTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKV 91

Query: 73  YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINV 132
            K+ +++ +++  +   +++VGNK DL+ QR VS  +A+  A+ +   + E SAK    +
Sbjct: 92  KKWIKELKQMRG-NNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGI 150

Query: 133 DQAFHELVRIVL 144
           ++ F  L + ++
Sbjct: 151 EELFLSLAKRMI 162

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

 Score = 97.3 bits (243), Expect = 2e-26
 Identities = 46/157 (29%), Positives = 77/157 (49%), Gaps = 24/157 (15%)

Query: 6   YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
            F  DY PT+ ++Y+    +D  P  L + DTAGQE++  +R       + FL+ FSV  
Sbjct: 22  AFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDS 81

Query: 66  RNSFEEI-YKFHRQILRVKDRDEF----PMLMVGNKADL----------DHQRQ--VSSM 108
             SFE +  K++ ++        F    P+++VG K DL            ++Q  V+  
Sbjct: 82  PASFENVKEKWYPEVK------HFCPNVPIILVGTKLDLRNDKSTLEELSKKKQEPVTYE 135

Query: 109 DAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
             Q +A+++  + Y+ECSA  +  V + F E +R  L
Sbjct: 136 QGQALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL 172

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

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

 Score = 93.8 bits (234), Expect = 5e-25
 Identities = 43/139 (30%), Positives = 77/139 (55%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  + + TI  ++ T+   +DD   + +I DTAGQE + ++   Y R     ++V+ +T 
Sbjct: 26  FSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITS 85

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SFE+   + ++ L+        + + GNKADL+ +RQVS+ +AQ  A +  + ++E S
Sbjct: 86  EESFEKAKSWVKE-LQEHGPPNIVIALAGNKADLESKRQVSTEEAQEYADENGLLFMETS 144

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++ F E+ R + 
Sbjct: 145 AKTGENVNELFTEIARKLP 163

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

 Score = 94.8 bits (236), Expect = 9e-25
 Identities = 45/136 (33%), Positives = 80/136 (58%)

Query: 10  DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
            Y+ + +D+Y +   +D   A L + D   QE+   + +  M+ G+ +++V+SVTDR+SF
Sbjct: 29  AYEASGDDTYERTVSVDGEEATLVVYDHWEQEDGMWLEDSCMQVGDAYVIVYSVTDRSSF 88

Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR 129
           E+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE SA ++
Sbjct: 89  EKASELRIQLRRARQAEDIPIILVGNKSDLVRSREVSVQEGRACAVVFDCKFIETSAALQ 148

Query: 130 INVDQAFHELVRIVLL 145
            NVD+ F  +VR V L
Sbjct: 149 HNVDELFEGIVRQVRL 164

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

 Score = 93.9 bits (233), Expect = 2e-24
 Identities = 47/160 (29%), Positives = 76/160 (47%), Gaps = 18/160 (11%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y PTI +    + +       +L + DTAGQEE+ ++R +Y R   G L+V+
Sbjct: 26  VGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVY 85

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL---- 117
             T R S +E+ +   + LR    D+ P+L+VGNK DL  ++  S      + R++    
Sbjct: 86  DSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLV 145

Query: 118 -----------RIPYIECSAKV--RINVDQAFHELVRIVL 144
                          +E SAK     NV++ F EL+R +L
Sbjct: 146 LAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLL 185

Length = 219

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

 Score = 89.2 bits (221), Expect = 6e-23
 Identities = 43/121 (35%), Positives = 70/121 (57%), Gaps = 1/121 (0%)

Query: 21  KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL 80
           K   +D +  +L I DTAGQE F ++   Y R     LL++ VT+++SF+ I  +  +IL
Sbjct: 41  KVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEIL 100

Query: 81  RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
                D   ML+ GNKAD+  +R V   D + +A++  +P++E SAK  +NV+ AF  + 
Sbjct: 101 EYAQSDVVIMLL-GNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVA 159

Query: 141 R 141
           +
Sbjct: 160 K 160

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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 88.1 bits (219), Expect = 8e-23
 Identities = 48/133 (36%), Positives = 74/133 (55%), Gaps = 6/133 (4%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   +DD   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 25  FDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITN 84

Query: 66  RNSFEEIYKFHRQILRVKDR--DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           R SF+   K+   I  V+D   ++  +++VGNK DL  +RQVS+ + +  A++    +IE
Sbjct: 85  RQSFDNTDKW---IDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKENNAMFIE 141

Query: 124 CSAKVRINVDQAF 136
            SAK   NV Q F
Sbjct: 142 TSAKAGHNVKQLF 154

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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 87.8 bits (218), Expect = 9e-23
 Identities = 40/137 (29%), Positives = 65/137 (47%), Gaps = 3/137 (2%)

Query: 7   FVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
            +T+Y P    +Y    +  D    + ++LDTAGQE++ A+R  Y R+ E  L VF +  
Sbjct: 27  SITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRRLYYRAVESSLRVFDIVI 86

Query: 66  R-NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC 124
                EEI +   + +        P+++VGNK DL    ++ +  A   A+    P I  
Sbjct: 87  LVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRD-AKLKTHVAFLFAKLNGEPIIPL 145

Query: 125 SAKVRINVDQAFHELVR 141
           SA+   N+D AF  +  
Sbjct: 146 SAETGKNIDSAFKIVEA 162

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|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score = 89.0 bits (221), Expect = 1e-22
 Identities = 47/132 (35%), Positives = 78/132 (59%), Gaps = 2/132 (1%)

Query: 12  DPTIE-DSYTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           DPT+  D +++   I+  +  +L + DTAGQE F ++   Y R+  G LLVF +T+R SF
Sbjct: 32  DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESF 91

Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR 129
           E ++ +  +            ++VG+K DL+ QRQV+  +A+ +A+ L + YIE SA+  
Sbjct: 92  EHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTG 151

Query: 130 INVDQAFHELVR 141
            NV++AF  L +
Sbjct: 152 DNVEEAFELLTQ 163

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

 Score = 86.8 bits (215), Expect = 4e-22
 Identities = 43/114 (37%), Positives = 66/114 (57%), Gaps = 2/114 (1%)

Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAGQE F ++   + R   GFLL+F +T   SF  +  +  Q L+     E P +
Sbjct: 65  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQ-LQAHAYCENPDI 123

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL 144
           +++GNKADL  QR+VS   A+ +A +  IPY E SA    NV++A   L+ +++
Sbjct: 124 VLIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIM 177

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|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score = 86.5 bits (214), Expect = 4e-22
 Identities = 50/127 (39%), Positives = 70/127 (55%), Gaps = 5/127 (3%)

Query: 21  KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL 80
           K   +D     L I DTAGQE F ++R  + R  +  LL FSV D  SF+ +  + ++ +
Sbjct: 45  KDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFI 104

Query: 81  R---VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAF 136
               VK+ + FP +++GNK D+  +RQVS+ +AQ   R     PY E SAK   NV  AF
Sbjct: 105 YYADVKEPESFPFVILGNKIDIP-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

Query: 137 HELVRIV 143
            E VR V
Sbjct: 164 EEAVRRV 170

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

 Score = 86.0 bits (213), Expect = 5e-22
 Identities = 49/133 (36%), Positives = 72/133 (54%), Gaps = 5/133 (3%)

Query: 7   FVTDYDPTI-EDSYTKQCVID--DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
           F  DY  TI  D   KQ  +   D   RL + DTAGQEEF A+ + Y R  +  +LVFS 
Sbjct: 25  FTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFST 84

Query: 64  TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           TDR SFE I  +  ++       + PM++V  K DL  Q  +++ +A+ +A++L++P   
Sbjct: 85  TDRESFEAIESWKEKVEAEC--GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFR 142

Query: 124 CSAKVRINVDQAF 136
            S K   NV + F
Sbjct: 143 TSVKDDFNVTELF 155

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 87.4 bits (216), Expect = 5e-22
 Identities = 47/134 (35%), Positives = 72/134 (53%), Gaps = 2/134 (1%)

Query: 8   VTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           V D  PTI  D   KQ  +     +L I DTAGQE F  +   Y R+ +G +LV+ VT R
Sbjct: 39  VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRR 98

Query: 67  NSFEEIYK-FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            +F  +   + +++       +   ++VGNK D + +R VS  +   +A++    ++ECS
Sbjct: 99  ETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECS 158

Query: 126 AKVRINVDQAFHEL 139
           AK R NV+Q F EL
Sbjct: 159 AKTRENVEQCFEEL 172

Length = 211

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

 Score = 84.8 bits (210), Expect = 2e-21
 Identities = 48/152 (31%), Positives = 80/152 (52%), Gaps = 20/152 (13%)

Query: 3   IESY----FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFL 58
           I SY    + T+Y PT  D+++   ++D  P RL + DTAGQ+EF  +R       + FL
Sbjct: 17  IVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFL 76

Query: 59  LVFSVTDRNSFEEIYKFHRQILRVKDRD-EFPMLMVGNKADL------------DHQRQV 105
           L FSV + +SF+ I    + I  ++  + + P+++VG +ADL              ++ V
Sbjct: 77  LCFSVVNPSSFQNIS--EKWIPEIRKHNPKAPIILVGTQADLRTDVNVLIQLARYGEKPV 134

Query: 106 SSMDAQNVARQLR-IPYIECSAKVRINVDQAF 136
           S   A+ +A ++    YIECSA  + N+ + F
Sbjct: 135 SQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 83.7 bits (207), Expect = 5e-21
 Identities = 45/141 (31%), Positives = 75/141 (53%), Gaps = 2/141 (1%)

Query: 4   ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  F+ D   TI   + T+   ++    +L I DTAGQE F A+   Y R   G L+V+ 
Sbjct: 24  EKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R+++  +  +      + + +    L +GNKADL+ QR V+  +A+  A +  + ++
Sbjct: 84  ITRRSTYNHLSSWLTDARNLTNPNTVIFL-IGNKADLEAQRDVTYEEAKQFADENGLLFL 142

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           ECSAK   NV+ AF E  + +
Sbjct: 143 ECSAKTGENVEDAFLETAKKI 163

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

 Score = 83.4 bits (206), Expect = 6e-21
 Identities = 42/113 (37%), Positives = 64/113 (56%), Gaps = 1/113 (0%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L I DTAGQE +  +   Y R   GF+L++ +T+  SF  +  +  QI +    D   +
Sbjct: 51  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI-KTYSWDNAQV 109

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV 143
           ++VGNK D++ +R VS+   + +A QL   + E SAK  INV Q F  LV I+
Sbjct: 110 ILVGNKCDMEDERVVSAERGRQLADQLGFEFFEASAKENINVKQVFERLVDII 162

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 82.3 bits (203), Expect = 5e-20
 Identities = 40/121 (33%), Positives = 68/121 (56%), Gaps = 1/121 (0%)

Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   ++    +  I DTAGQE + A+   Y R   G LLV+ +T R +F+ + ++ R+ 
Sbjct: 51  TRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRE- 109

Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        ++M GNK+DL+H R V+  D Q +A +  + ++E SA    NV++AF  +
Sbjct: 110 LRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTI 169

Query: 140 V 140
           +
Sbjct: 170 L 170

Length = 216

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

 Score = 80.6 bits (199), Expect = 6e-20
 Identities = 41/128 (32%), Positives = 66/128 (51%), Gaps = 2/128 (1%)

Query: 17  DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH 76
           D   K   I     +L I DTAGQE F  + + Y RS  G ++ + +T R+SFE +  + 
Sbjct: 39  DFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWI 98

Query: 77  RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY-IECSAKVRINVDQA 135
            ++ +    +   +L+ GNK DL+ QR+V   +A  +A    I   +E SAK   NV++A
Sbjct: 99  EEVEKYGASNVVLLLI-GNKCDLEEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEA 157

Query: 136 FHELVRIV 143
           F  +   +
Sbjct: 158 FLLMATEL 165

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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 80.5 bits (199), Expect = 8e-20
 Identities = 43/131 (32%), Positives = 69/131 (52%), Gaps = 2/131 (1%)

Query: 7   FVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +D TI   +  +   ID    +L I DTAGQE F ++   Y R   G LLV+ +T 
Sbjct: 29  FQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR 88

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R +F  +  +     R        ++++GNK DL+ +R+VS  + +  AR+  + ++E S
Sbjct: 89  RETFNHLTSWLEDA-RQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAREHGLIFMETS 147

Query: 126 AKVRINVDQAF 136
           AK   NV++AF
Sbjct: 148 AKTASNVEEAF 158

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

 Score = 79.8 bits (197), Expect = 1e-19
 Identities = 42/138 (30%), Positives = 64/138 (46%), Gaps = 12/138 (8%)

Query: 11  YDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMRE-----QYMRSGEGFLLVFSVT 64
              T   D Y K+     +   L ++DT G +EF  +         +R  +  LLV   T
Sbjct: 29  PGTTRDPDVYVKELDKGKVK--LVLVDTPGLDEFGGLGREELARLLLRGADLILLVVDST 86

Query: 65  DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNV-ARQLRIPYIE 123
           DR S E+       ILR   ++  P+++VGNK DL  +R+V  +      A+ L +P  E
Sbjct: 87  DRESEEDA---KLLILRRLRKEGIPIILVGNKIDLLEEREVEELLRLEELAKILGVPVFE 143

Query: 124 CSAKVRINVDQAFHELVR 141
            SAK    VD+ F +L+ 
Sbjct: 144 VSAKTGEGVDELFEKLIE 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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 79.4 bits (196), Expect = 2e-19
 Identities = 45/142 (31%), Positives = 75/142 (52%), Gaps = 2/142 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE+ F  D + TI   +  + V +     +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 21  IENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 80

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R SF  +  +     R     +  +++VGNK DL+  R+V+ ++A   A++  + +
Sbjct: 81  DITSRESFNALTNWLTDA-RTLASPDIVIILVGNKKDLEDDREVTFLEASRFAQENGLLF 139

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SA    NV++AF +  R +
Sbjct: 140 LETSALTGENVEEAFLKCARSI 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|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 78.5 bits (194), Expect = 4e-19
 Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 16/122 (13%)

Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
             R ++ DTAGQE+F  +R+ Y   G+  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 48  KIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 105

Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVARQLRIP------YIECSAKVRINVDQAFHELVRI 142
           P+++ GNK D          D +   +Q+         Y E SAK   N ++ F  L R 
Sbjct: 106 PIVLCGNKVD--------IKDRKVKPKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARK 157

Query: 143 VL 144
           +L
Sbjct: 158 LL 159

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 79.6 bits (196), Expect = 4e-19
 Identities = 40/112 (35%), Positives = 64/112 (57%), Gaps = 1/112 (0%)

Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           ID+ P +L I DTAGQE F ++   Y R   G LLV+ +T R +F  +  +     R   
Sbjct: 50  IDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDA-RQHA 108

Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
                ++++GNK DL H+R VS+ + +  A++  + ++E SAK   NV++AF
Sbjct: 109 NANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAF 160

Length = 210

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

 Score = 78.2 bits (193), Expect = 1e-18
 Identities = 40/160 (25%), Positives = 70/160 (43%), Gaps = 31/160 (19%)

Query: 7   FVTDYDPTIEDSYTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +Y PT+ ++Y     + +     L + DTAGQE++  +R       +  L+ +SV +
Sbjct: 28  FPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQEDYDRLRPLSYPDVDVILICYSVDN 87

Query: 66  RNSFE--------EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ------------V 105
             S +        E+  F             P+++VG K DL   +             V
Sbjct: 88  PTSLDNVEDKWYPEVNHFCPGT---------PIVLVGLKTDLRKDKNSVSKLRAQGLEPV 138

Query: 106 SSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           +    ++VA+ +  + YIECSAK+  NVD+ F   + + L
Sbjct: 139 TPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINVAL 178

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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 77.4 bits (190), Expect = 2e-18
 Identities = 41/115 (35%), Positives = 70/115 (60%), Gaps = 2/115 (1%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           RL I DTAGQE F+++   Y RS +G +LV+ +T + +F+++ K+ + I +    D   +
Sbjct: 50  RLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDA-EL 108

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           L+VGNK D +  R+++    +  A+Q+  + + E SAK   NVD+ F +LV  +L
Sbjct: 109 LLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDIL 163

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

 Score = 76.0 bits (187), Expect = 5e-18
 Identities = 51/149 (34%), Positives = 77/149 (51%), Gaps = 12/149 (8%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F TDY PT+ D+++   V+D     L + DTAGQE+++ +R    R  + FLL FS+  +
Sbjct: 26  FPTDYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISK 85

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL--------DHQRQVSSMDAQN--VARQ 116
            S+E + K     LR       P+++VG K DL        DH   V    AQ   + +Q
Sbjct: 86  ASYENVLKKWIPELR-HYAPGVPIVLVGTKLDLRDDKQFFADHPGAVPITTAQGEELRKQ 144

Query: 117 LRIP-YIECSAKVRINVDQAFHELVRIVL 144
           +    YIECS+K + NV   F   +++VL
Sbjct: 145 IGAAAYIECSSKTQQNVKAVFDAAIKVVL 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|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score = 76.1 bits (187), Expect = 5e-18
 Identities = 45/147 (30%), Positives = 75/147 (51%), Gaps = 19/147 (12%)

Query: 12  DPTIEDSY---------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           D + E  Y         T   ++D    +L + DT+GQ  F  +   Y R  +G +LV+ 
Sbjct: 28  DGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYD 87

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDE----FPMLMVGNKADLDHQRQVSSMDAQNVARQLR 118
           +T+R SF+ I ++      +K+ DE     P ++VGN+  L  +RQV++  AQ  A +  
Sbjct: 88  ITNRWSFDGIDRW------IKEIDEHAPGVPKILVGNRLHLAFKRQVATEQAQAYAERNG 141

Query: 119 IPYIECSAKVRINVDQAFHELVRIVLL 145
           + + E S     N+ ++F EL RIVL+
Sbjct: 142 MTFFEVSPLCNFNITESFTELARIVLM 168

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

 Score = 75.4 bits (185), Expect = 1e-17
 Identities = 48/163 (29%), Positives = 78/163 (47%), Gaps = 21/163 (12%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+ Q  +D     L++ DTAGQEE+  +R         F++ FS+   
Sbjct: 28  FPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASP 87

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV------------SSMDAQNV 113
           +S+E + +K+H ++         P+L+VG K DL +                +      +
Sbjct: 88  SSYENVRHKWHPEV--CHHCPNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGAL 145

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVLL-----HTKQC 150
           A+Q+  + Y+ECSA  +  V + F E VR VL       TK C
Sbjct: 146 AKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPTPIKDTKSC 188

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

 Score = 73.9 bits (182), Expect = 3e-17
 Identities = 40/146 (27%), Positives = 70/146 (47%), Gaps = 5/146 (3%)

Query: 4   ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  FV+ Y PTI   Y  K+  + +   R++  D +G  E+  +R ++ +  +G LLV+ 
Sbjct: 22  EGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYD 81

Query: 63  VTDRNSFEEIYKFHRQI----LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR 118
           VTDR SFE +  + +++        + +   +++  NK DL   R VS  + +  A    
Sbjct: 82  VTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKG 141

Query: 119 IPYIECSAKVRINVDQAFHELVRIVL 144
             Y E SA     V++ F  L   ++
Sbjct: 142 FKYFETSACTGEGVNEMFQTLFSSIV 167

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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score = 73.9 bits (181), Expect = 3e-17
 Identities = 42/133 (31%), Positives = 69/133 (51%), Gaps = 11/133 (8%)

Query: 17  DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH 76
           D   K   +D I  R+ I DTAGQE +  + +QY R  +G  LV+ ++   S++ I K+ 
Sbjct: 36  DFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKW- 94

Query: 77  RQILRVKDRDEF-----PMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRIN 131
                V D DE+       +++GNKAD + +RQV       +A++  + + E SA    N
Sbjct: 95  -----VSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNKN 149

Query: 132 VDQAFHELVRIVL 144
           + ++F  L  +VL
Sbjct: 150 IKESFTRLTELVL 162

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 72.1 bits (176), Expect = 2e-16
 Identities = 44/134 (32%), Positives = 72/134 (53%), Gaps = 2/134 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +Y  TI  D  +K   +D+ P RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 5   FDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITN 64

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE   K+ + IL  + +D   + +VGNK DL   R+V+  +    A++    + E S
Sbjct: 65  RQSFENTTKWIQDILNERGKDVI-IALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETS 123

Query: 126 AKVRINVDQAFHEL 139
           AK   N+   F ++
Sbjct: 124 AKAGHNIKVLFKKI 137

Length = 176

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

 Score = 71.5 bits (175), Expect = 3e-16
 Identities = 41/123 (33%), Positives = 64/123 (52%), Gaps = 1/123 (0%)

Query: 17  DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH 76
           D   K   I     +L I DTAGQE F ++ + Y RS    +L + +T   SF  + ++ 
Sbjct: 43  DFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWL 102

Query: 77  RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
           R+I +  +     +L VGNK DL  +R+VS   A+  +    + Y+E SAK   NV++ F
Sbjct: 103 REIEQYANNKVITIL-VGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLF 161

Query: 137 HEL 139
            +L
Sbjct: 162 LDL 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|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 72.0 bits (177), Expect = 3e-16
 Identities = 38/113 (33%), Positives = 64/113 (56%), Gaps = 4/113 (3%)

Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P   ++ DTAGQE+F  +R+ Y   G+  +++F VT R +++ +  +HR I+RV   +  
Sbjct: 57  PICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC--ENI 114

Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++VGNK D+   RQV +       R+  + Y + SAK   N ++ F  L R
Sbjct: 115 PIVLVGNKVDV-KDRQVKARQIT-FHRKKNLQYYDISAKSNYNFEKPFLWLAR 165

Length = 215

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

 Score = 71.8 bits (176), Expect = 3e-16
 Identities = 47/143 (32%), Positives = 74/143 (51%), Gaps = 3/143 (2%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D   +   I+    +L I DTAGQE F  +   Y R   G ++V+ VT+
Sbjct: 31  FSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN 90

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF  + ++ ++I   ++ D+   ++VGNK D   ++ V + DA   A Q+ I   E S
Sbjct: 91  GESFVNVKRWLQEI--EQNCDDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETS 148

Query: 126 AKVRINVDQAFHELVRIVLLHTK 148
           AK  INV++ F+ +  +VL   K
Sbjct: 149 AKENINVEEMFNCITELVLRAKK 171

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

 Score = 70.6 bits (173), Expect = 4e-16
 Identities = 35/116 (30%), Positives = 54/116 (46%)

Query: 26  DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR 85
                 L I D+AGQE FS M E          +V+ VT+  SF    ++  ++      
Sbjct: 49  TSDSVELFIFDSAGQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHG 108

Query: 86  DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
              P ++VGNK DL  +R+V +  AQ +A+   + + E SAK  +  +  F  L R
Sbjct: 109 LHTPGVLVGNKCDLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSLAR 164

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

 Score = 70.3 bits (172), Expect = 7e-16
 Identities = 43/148 (29%), Positives = 73/148 (49%), Gaps = 16/148 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 26  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 85

Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++    + +
Sbjct: 86  SSFENVKEKWVPEITHHCPK--TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKL 143

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELV 140
           AR L+ + Y+ECSA  +  +   F E +
Sbjct: 144 ARDLKAVKYVECSALTQKGLKNVFDEAI 171

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

 Score = 69.9 bits (171), Expect = 1e-15
 Identities = 45/152 (29%), Positives = 68/152 (44%), Gaps = 14/152 (9%)

Query: 6   YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
            F  +Y PT+ ++Y   C +D  P +L + DTAGQEE+  +R          L+ F++  
Sbjct: 25  EFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAIDT 84

Query: 66  RNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL----------DHQRQVSSMDAQNVA 114
            +S E +  K+  ++ R       P+++VG K DL               V    A+ VA
Sbjct: 85  PDSLENVRTKWIEEVRRYC--PNVPVILVGLKKDLRQEAVAKGNYATDEFVPIQQAKLVA 142

Query: 115 RQLRI-PYIECSAKVRINVDQAFHELVRIVLL 145
           R +    Y+ECSA     VD  F    R  LL
Sbjct: 143 RAIGAKKYMECSALTGEGVDDVFEAATRAALL 174

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 = 69.1 bits (169), Expect = 2e-15
 Identities = 42/151 (27%), Positives = 71/151 (47%), Gaps = 12/151 (7%)

Query: 6   YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           YF   Y+PT+ ++Y     +D +   L + DTAGQEEF  +R          +L FSV +
Sbjct: 24  YFPQVYEPTVFENYIHDIFVDGLAVELSLWDTAGQEEFDRLRSLSYADTHVIMLCFSVDN 83

Query: 66  RNSFEEIYKFHRQILRVKDRDE-FPMLMVGNKADL--------DHQRQVSSMDAQNVARQ 116
            +S E +    + +  ++       +++V  K DL             +S  +   VA++
Sbjct: 84  PDSLENVES--KWLAEIRHHCPGVKLVLVALKCDLREPRNERDRGTHTISYEEGLAVAKR 141

Query: 117 LR-IPYIECSAKVRINVDQAFHELVRIVLLH 146
           +    Y+ECSAK+   V++AF E  R+ L  
Sbjct: 142 INACRYLECSAKLNRGVNEAFTEAARVALNA 172

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|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 = 67.1 bits (164), Expect = 1e-14
 Identities = 40/151 (26%), Positives = 73/151 (48%), Gaps = 16/151 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 26  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 85

Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADLDHQRQ------------VSSMDAQNV 113
            SFE +  K++ ++         P+++VG K DL   +             ++      +
Sbjct: 86  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 143

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIV 143
           A+++  + Y+ECSA  +  +   F E +R V
Sbjct: 144 AKEIGAVKYLECSALTQRGLKTVFDEAIRAV 174

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

 Score = 65.5 bits (160), Expect = 4e-14
 Identities = 36/108 (33%), Positives = 55/108 (50%), Gaps = 1/108 (0%)

Query: 21  KQCVIDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           +   ID    ++ + DTAGQE F  +M + Y R+    + V+ VT+  SF  +  +  + 
Sbjct: 42  RTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEEC 101

Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK 127
            +    +E P ++VGNK DL  Q QV +  AQ  A    +P  E SAK
Sbjct: 102 EQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAK 149

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

 Score = 64.6 bits (158), Expect = 2e-13
 Identities = 39/124 (31%), Positives = 62/124 (50%), Gaps = 7/124 (5%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI---LRVKDRDE 87
           RL + D AGQE F  M   Y +   G ++VF VT  ++FE + K+   +   + + + + 
Sbjct: 51  RLQLWDIAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEP 110

Query: 88  FPMLMVGNKADLDHQR---QVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL 144
            P L++ NK DL  +R       MD         I + E SAK  IN+++A   LV+ +L
Sbjct: 111 IPALLLANKCDLKKERLAKDPEQMDQF-CKENGFIGWFETSAKENINIEEAMRFLVKNIL 169

Query: 145 LHTK 148
            + K
Sbjct: 170 KNDK 173

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

 Score = 64.8 bits (158), Expect = 2e-13
 Identities = 39/115 (33%), Positives = 62/115 (53%), Gaps = 8/115 (6%)

Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
             R    DTAGQE+F  +R+ Y   G+  +++F VT R +++ +  +HR + RV   +  
Sbjct: 61  KIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC--ENI 118

Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+   RQV    A+ V   R+  + Y E SAK   N ++ F  L R
Sbjct: 119 PIVLCGNKVDV-KNRQVK---AKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLAR 169

Length = 219

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

 Score = 63.5 bits (154), Expect = 4e-13
 Identities = 37/115 (32%), Positives = 67/115 (58%), Gaps = 8/115 (6%)

Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P R ++ DTAGQE+F  +R+ Y   G+  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 43  PIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC--ENI 100

Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+   R+V    A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 101 PIVLCGNKVDVK-DRKVK---AKSITFHRKKNLQYYDISAKSNYNFEKPFLWLAR 151

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

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

 Score = 60.7 bits (147), Expect = 3e-12
 Identities = 41/133 (30%), Positives = 62/133 (46%), Gaps = 3/133 (2%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +Y  TI  D   ++  +  +P  L + DTAGQE F  +   Y R  +  ++VF +TD
Sbjct: 25  FDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTD 84

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM--DAQNVARQLRIPYIE 123
             S E   ++    L+  D     + +VG K DL    Q + M  DA  +AR+++  Y  
Sbjct: 85  VASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAREMKAEYWA 144

Query: 124 CSAKVRINVDQAF 136
            SA    NV   F
Sbjct: 145 VSALTGENVRDFF 157

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|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 61.0 bits (148), Expect = 5e-12
 Identities = 38/145 (26%), Positives = 69/145 (47%), Gaps = 4/145 (2%)

Query: 4   ESYFVTDYDPTIE-DSYTKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +  F   Y  TI  D ++++  +   +   L + D  GQ+    M ++Y+   +   LV+
Sbjct: 22  QEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQQIGGKMLDKYIYGAQAVCLVY 81

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFP--MLMVGNKADLDHQRQVSSMDAQNVARQLRI 119
            +T+  SFE +  +   + +V +  E    M++VGNK DL+H RQV++      A++  +
Sbjct: 82  DITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEHNRQVTAEKHARFAQENDM 141

Query: 120 PYIECSAKVRINVDQAFHELVRIVL 144
             I  SAK    V   F  +   +L
Sbjct: 142 ESIFVSAKTGDRVFLCFQRIAAELL 166

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|219856 pfam08477, Miro, Miro-like protein

 Score = 57.0 bits (138), Expect = 3e-11
 Identities = 23/92 (25%), Positives = 42/92 (45%), Gaps = 2/92 (2%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPAR-LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +      D+     +  D     L+I D  G+EE       +M+  +  LLV+ +TD
Sbjct: 24  FPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREELKFEHIIFMKWADAILLVYDLTD 83

Query: 66  RNSFEEIYKFHRQILRVKDRD-EFPMLMVGNK 96
           R S  E+ +    +  ++    + P+++VGNK
Sbjct: 84  RESLNEVSRLIAWLPNLRKLGGKIPVILVGNK 115

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

 Score = 58.2 bits (141), Expect = 3e-11
 Identities = 41/152 (26%), Positives = 68/152 (44%), Gaps = 24/152 (15%)

Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   +S E
Sbjct: 30  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 89

Query: 71  EI-YKFHRQILRVKDRDEF----PMLMVGNKADLDH------------QRQVSSMDAQNV 113
            I  K+  ++        F    P+++VGNK DL +            Q  V   + + +
Sbjct: 90  NIPEKWTPEVK------HFCPNVPIILVGNKKDLRNDEHTIRELAKMKQEPVKPEEGRAM 143

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 144 AEKIGAFGYLECSAKTKEGVREVFEMATRAAL 175

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|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 57.6 bits (139), Expect = 7e-11
 Identities = 43/139 (30%), Positives = 71/139 (51%), Gaps = 7/139 (5%)

Query: 6   YFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT 64
           + V  Y  TI  ++  K+ V+ +    L I DTAG E + AM   Y R  +  ++ + +T
Sbjct: 25  FLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLT 84

Query: 65  DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ----RQVSSMDAQNVARQLRIP 120
           D +SFE   KF  + L+    +   + + G K+DL  Q    RQV   D Q+ A +++  
Sbjct: 85  DSSSFERA-KFWVKELQ-NLEEHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQ 142

Query: 121 YIECSAKVRINVDQAFHEL 139
           + E S+K   NVD+ F ++
Sbjct: 143 HFETSSKTGQNVDELFQKV 161

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

 Score = 55.6 bits (134), Expect = 2e-10
 Identities = 39/149 (26%), Positives = 67/149 (44%), Gaps = 10/149 (6%)

Query: 3   IESYFVTDYDPTIEDSYT-----KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGF 57
           +E + +  Y+P    +Y           +     +D  DTAGQE F  M   Y       
Sbjct: 17  VERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHAC 76

Query: 58  LLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL 117
           +LVF VT + +++ + K++ + LR + R E P ++V NK DLD           N A + 
Sbjct: 77  ILVFDVTRKITYKNLSKWYEE-LR-EYRPEIPCIVVANKIDLDPSVTQKKF---NFAEKH 131

Query: 118 RIPYIECSAKVRINVDQAFHELVRIVLLH 146
            +P    SA    NV + F + +++ + +
Sbjct: 132 NLPLYYVSAADGTNVVKLFQDAIKLAVSY 160

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

 Score = 54.5 bits (131), Expect = 8e-10
 Identities = 30/109 (27%), Positives = 51/109 (46%), Gaps = 3/109 (2%)

Query: 39  GQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL--RVKDRDEFPMLMVGNK 96
             +E+   R + +R+   F+LV+ +   +SF  +    +QIL  R     E P+++VGNK
Sbjct: 66  AGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNK 125

Query: 97  ADLDHQRQVSSMD-AQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL 144
            D    R       +  V +  +  Y+ECSAK   ++   F EL+    
Sbjct: 126 RDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISAT 174

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|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 53.8 bits (129), Expect = 2e-09
 Identities = 42/163 (25%), Positives = 63/163 (38%), Gaps = 37/163 (22%)

Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P  + I DTAG+E+F  +   Y R     +L + V++  S EE+      +    + D  
Sbjct: 43  PYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCL 102

Query: 89  PMLMVGNKADL-------------------DHQRQVSSMDAQNVARQL------------ 117
              +VGNK DL                   + QRQV+  DA+   +++            
Sbjct: 103 -FAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSP 161

Query: 118 --RIPYIECSAKVRINVDQAFHELVRIVL---LHTKQCKNSTV 155
                  E SAK   NVD+ F  L  +VL   L  +   N T 
Sbjct: 162 AAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANRTQ 204

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|133303 cd04103, Centaurin_gamma, Centaurin gamma (CENTG) GTPase

 Score = 51.7 bits (124), Expect = 5e-09
 Identities = 33/125 (26%), Positives = 58/125 (46%), Gaps = 12/125 (9%)

Query: 19  YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ 78
           + K+ ++D     L I D  G  +      Q+    +  + VFS+ D  SF+ +Y+ + Q
Sbjct: 36  FKKEVLVDGQSHLLLIRDEGGAPDA-----QFAGWVDAVIFVFSLEDEASFQTVYRLYHQ 90

Query: 79  ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIECSAKVRINVD 133
           +   ++  E P+++VG +  +         DA+  ARQL     R  Y E  A   +NV+
Sbjct: 91  LSSYRNISEIPLILVGTQDAISASNPRVIDDAR--ARQLCADMKRCSYYETCATYGLNVE 148

Query: 134 QAFHE 138
           + F E
Sbjct: 149 RVFQE 153

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|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 51.1 bits (123), Expect = 1e-08
 Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 9/65 (13%)

Query: 59  LVFSVTDRNSFE---EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR 115
           LV+  +D NSF    E+YK +          E P L V  KADLD Q+Q + +      R
Sbjct: 83  LVYDSSDPNSFSYCAEVYKKY------FMLGEIPCLFVAAKADLDEQQQRAEVQPDEFCR 136

Query: 116 QLRIP 120
           +L +P
Sbjct: 137 KLGLP 141

Miro2 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 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. Length = 180

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

 Score = 49.6 bits (119), Expect = 3e-08
 Identities = 32/116 (27%), Positives = 55/116 (47%), Gaps = 7/116 (6%)

Query: 26  DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR 85
           + +P    I+DT+ + +  A     +R      LV+SV   ++ E I      ++R    
Sbjct: 47  ERVPTT--IVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRL-G 103

Query: 86  DEFPMLMVGNKADL-DHQRQVSSMDA-QNVARQLR--IPYIECSAKVRINVDQAFH 137
            + P+++VGNK+DL D   Q    +    +  + R     +ECSAK  INV + F+
Sbjct: 104 VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY 159

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

 Score = 48.6 bits (116), Expect = 9e-08
 Identities = 37/146 (25%), Positives = 67/146 (45%), Gaps = 17/146 (11%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    +D     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 26  FPENYVPTVFENYTASFEVDKQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 85

Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKAD----------LDHQRQ--VSSMDAQNV 113
            + + +  K+  ++         P+L+VG K+D          L ++RQ  VS    +N+
Sbjct: 86  ETLDSVLKKWKGEVREFCPNT--PVLLVGCKSDLRTDLSTLTELSNKRQIPVSHEQGRNL 143

Query: 114 ARQL-RIPYIECSAKV-RINVDQAFH 137
           A+Q+    Y+ECSAK    +V   F 
Sbjct: 144 AKQIGAAAYVECSAKTSENSVRDVFE 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|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 46.6 bits (110), Expect = 6e-07
 Identities = 41/149 (27%), Positives = 63/149 (42%), Gaps = 23/149 (15%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 30  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 89

Query: 67  NSFEEIYKFHRQILRVKDRDEF----PMLMVGNKADL------------DHQRQVSSMDA 110
            + + + K  +      +  EF     ML+VG K+DL              Q  VS    
Sbjct: 90  ETLDSVLKKWK-----GEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG 144

Query: 111 QNVARQLR-IPYIECSAKVRIN-VDQAFH 137
            N+A+Q+    YIECSA    N V   FH
Sbjct: 145 ANMAKQIGAATYIECSALQSENSVRDIFH 173

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|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 46.2 bits (110), Expect = 7e-07
 Identities = 34/122 (27%), Positives = 55/122 (45%), Gaps = 9/122 (7%)

Query: 21  KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL 80
           K   I        I D  GQ EF  M     +     L +F +T +++   I +++RQ  
Sbjct: 40  KTISIRGTEITFSIWDLGGQREFINMLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQA- 98

Query: 81  RVKDRDEFPMLMVGNKADL------DHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ 134
           R  ++   P+L VG K DL      + Q +++   A+  A+ ++ P I CS    INV +
Sbjct: 99  RGFNKTAIPIL-VGTKYDLFADLPPEEQEEITK-QARKYAKAMKAPLIFCSTSHSINVQK 156

Query: 135 AF 136
            F
Sbjct: 157 IF 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|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 45.4 bits (107), Expect = 2e-06
 Identities = 37/151 (24%), Positives = 68/151 (45%), Gaps = 14/151 (9%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D Y     +      L + DTAGQE++  +R       + FL+ FSV + 
Sbjct: 25  FPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNP 84

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD------------HQRQVSSMDAQNVA 114
            SF+ + +     L+ +     P L++G + DL              ++ ++    Q +A
Sbjct: 85  ASFQNVKEEWVPELK-EYAPNVPYLLIGTQIDLRDDPKTLARLNDMKEKPITVEQGQKLA 143

Query: 115 RQLRIP-YIECSAKVRINVDQAFHELVRIVL 144
           +++    Y+ECSA  +  +   F E +  +L
Sbjct: 144 KEIGACCYVECSALTQKGLKTVFDEAIIAIL 174

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

 Score = 41.5 bits (98), Expect = 3e-05
 Identities = 31/137 (22%), Positives = 52/137 (37%), Gaps = 18/137 (13%)

Query: 22  QCVIDDIPA-------------RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
           Q   D IP               + + D  GQ  F +M E+Y R     + V    DR  
Sbjct: 23  QFSEDTIPTVGFNMRKVTKGNVTIKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADREK 82

Query: 69  FEEIYKFHRQILRVKDRDEFPMLMVGNKADL----DHQRQVSSMDAQNVARQLRIPYIEC 124
            E        +L     +  P+L++GNK DL         +  M+ +++  +  +     
Sbjct: 83  LEVAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDR-EVSCYSI 141

Query: 125 SAKVRINVDQAFHELVR 141
           SAK + N+D     L++
Sbjct: 142 SAKEKTNIDIVLDWLIK 158

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

 Score = 40.8 bits (96), Expect = 6e-05
 Identities = 21/111 (18%), Positives = 38/111 (34%), Gaps = 4/111 (3%)

Query: 24  VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK 83
             +    RL++ D  GQE + A  + ++ S   +LLVF +   +    +  + RQI   K
Sbjct: 45  APERKKIRLNVWDFGGQEIYHATHQFFLTSRSLYLLVFDLRTGDEVSRVPYWLRQI---K 101

Query: 84  DRDEFPMLM-VGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVD 133
                  ++ VG   D      +           +       S K    + 
Sbjct: 102 AFGGVSPVILVGTHIDESCDEDILKKALNKKFPAIINDIHFVSCKNGKGIA 152

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

 Score = 40.3 bits (95), Expect = 8e-05
 Identities = 23/114 (20%), Positives = 46/114 (40%), Gaps = 13/114 (11%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +  + D  GQ++   + + Y  + +G + V   +DR   EE      ++L  ++    P+
Sbjct: 44  KFTVWDVGGQDKIRPLWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPL 103

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAF 136
           L++ NK DL       ++    +   L +  I         CSA     +D+  
Sbjct: 104 LILANKQDLPG-----ALTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGL 152

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|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 39.3 bits (91), Expect = 3e-04
 Identities = 37/148 (25%), Positives = 66/148 (44%), Gaps = 25/148 (16%)

Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++YT     ++    L + DT+G   +  +R       +  LL F ++    F+
Sbjct: 42  YVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPEIFD 101

Query: 71  E-IYKFHRQILRVKDRDEFP---MLMVGNKAD----------LDHQRQ--VSSMDAQNVA 114
             + K+  +IL     D  P   +L++G K D          L +Q+Q  +S      +A
Sbjct: 102 SALKKWRAEIL-----DYCPSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCAMA 156

Query: 115 RQLRIP-YIECSAKVRINVDQAFHELVR 141
           +QL    Y+ECSA      +++ H + R
Sbjct: 157 KQLGAEAYLECSA---FTSEKSIHSIFR 181

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

 Score = 35.9 bits (83), Expect = 0.003
 Identities = 20/76 (26%), Positives = 34/76 (44%)

Query: 36  DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN 95
           D  GQE+   + + Y R  +G + V    D    EE      +I +  +    P+L++ N
Sbjct: 58  DVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLAN 117

Query: 96  KADLDHQRQVSSMDAQ 111
           K DL +   VS ++  
Sbjct: 118 KQDLPNALPVSEVEKL 133

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	159
KOG0084|consensus	205		100.0
KOG0078|consensus	207		100.0
KOG0092|consensus	200		100.0
KOG0094|consensus	221		100.0
KOG0098|consensus	216		100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0079|consensus	198		100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0080|consensus	209		100.0
PTZ00099	176	rab6; Provisional	100.0
KOG0091|consensus	213		100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
KOG0087|consensus	222		100.0
KOG0093|consensus	193		100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
KOG0394|consensus	210		100.0
KOG0081|consensus	219		100.0
KOG0083|consensus	192		100.0
KOG0086|consensus	214		100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.98
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.98
KOG0088|consensus	218		99.98
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.97
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.97
KOG0095|consensus	213		99.97
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.97
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.97
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.97
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.97
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.97
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.97
KOG0395|consensus	196		99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.97
KOG0097|consensus	215		99.97
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.97
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.97
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.97
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.97
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.97
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.97
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.97
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.97
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.97
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.97
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.97
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.97
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.97
KOG0393|consensus	198		99.97
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.97
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.97
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.96
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.96
PLN03110	216	Rab GTPase; Provisional	99.96
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.96
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.96
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.96
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.96
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.96
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.96
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.96
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.96
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.96
PLN03108	210	Rab family protein; Provisional	99.96
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.96
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.96
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.96
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.96
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.96
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.96
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.96
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.95
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.95
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.95
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.95
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.95
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.95
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.95
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.95
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.95
PLN03118	211	Rab family protein; Provisional	99.95
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.95
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.94
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.94
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.94
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.94
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.94
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.94
PLN00223	181	ADP-ribosylation factor; Provisional	99.94
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.94
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.93
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.93
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.93
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.93
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.93
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.93
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.92
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.92
PTZ00133	182	ADP-ribosylation factor; Provisional	99.92
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.92
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.92
KOG4252|consensus	246		99.91
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.91
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.91
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.91
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.9
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.89
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.89
PLN00023	334	GTP-binding protein; Provisional	99.89
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.89
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.89
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.88
KOG0070|consensus	181		99.88
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.87
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.87
KOG0075|consensus	186		99.87
KOG0073|consensus	185		99.86
KOG3883|consensus	198		99.85
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.85
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.85
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.85
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.85
KOG0071|consensus	180		99.82
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.81
KOG1673|consensus	205		99.8
COG1100	219	GTPase SAR1 and related small G proteins [General	99.8
PRK12299	335	obgE GTPase CgtA; Reviewed	99.8
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.78
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.78
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.78
KOG4423|consensus	229		99.77
KOG0076|consensus	197		99.77
KOG0072|consensus	182		99.77
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.77
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.76
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.76
KOG0096|consensus	216		99.75
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.75
PRK03003	472	GTP-binding protein Der; Reviewed	99.74
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.74
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.73
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.73
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.73
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.72
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.71
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.7
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.7
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.69
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.68
PRK04213	201	GTP-binding protein; Provisional	99.68
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.68
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.67
PRK12297	424	obgE GTPase CgtA; Reviewed	99.66
PRK05433	600	GTP-binding protein LepA; Provisional	99.66
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.65
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.65
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.65
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.64
PRK03003	472	GTP-binding protein Der; Reviewed	99.64
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.64
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.63
COG2229	187	Predicted GTPase [General function prediction only	99.63
PRK12296	500	obgE GTPase CgtA; Reviewed	99.63
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.63
PRK15494	339	era GTPase Era; Provisional	99.63
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.62
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.62
PRK11058	426	GTPase HflX; Provisional	99.62
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.61
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.6
CHL00189	742	infB translation initiation factor 2; Provisional	99.6
cd00881	189	GTP_translation_factor GTP translation factor fami	99.59
PRK00093	435	GTP-binding protein Der; Reviewed	99.58
PRK00093	435	GTP-binding protein Der; Reviewed	99.58
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.57
KOG0074|consensus	185		99.57
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.56
PRK05306	787	infB translation initiation factor IF-2; Validated	99.56
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.56
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.55
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.55
PRK12298	390	obgE GTPase CgtA; Reviewed	99.54
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.52
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.51
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.5
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.49
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.49
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.48
COG1160	444	Predicted GTPases [General function prediction onl	99.48
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.48
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.48
PRK10218	607	GTP-binding protein; Provisional	99.47
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.46
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.46
PRK00089	292	era GTPase Era; Reviewed	99.46
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.45
PRK12317	425	elongation factor 1-alpha; Reviewed	99.44
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.43
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.43
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.42
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.41
KOG0462|consensus	650		99.41
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.38
PRK04004	586	translation initiation factor IF-2; Validated	99.37
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.37
COG1160	444	Predicted GTPases [General function prediction onl	99.36
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.35
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.35
COG0486	454	ThdF Predicted GTPase [General function prediction	99.34
KOG1707|consensus	625		99.34
PRK14845	1049	translation initiation factor IF-2; Provisional	99.32
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.3
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.29
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.29
KOG0077|consensus	193		99.29
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.28
COG1159	298	Era GTPase [General function prediction only]	99.26
PRK12736	394	elongation factor Tu; Reviewed	99.23
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.23
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.22
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.22
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.22
KOG1145|consensus	683		99.2
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.2
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.2
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.2
PRK00098	298	GTPase RsgA; Reviewed	99.18
PLN00043	447	elongation factor 1-alpha; Provisional	99.18
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.18
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.16
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.15
PRK12289	352	GTPase RsgA; Reviewed	99.15
KOG0082|consensus	354		99.13
PRK09866	741	hypothetical protein; Provisional	99.12
KOG1489|consensus	366		99.12
COG2262	411	HflX GTPases [General function prediction only]	99.11
PRK12735	396	elongation factor Tu; Reviewed	99.11
PRK13351	687	elongation factor G; Reviewed	99.07
PRK12288	347	GTPase RsgA; Reviewed	99.07
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	99.06
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.06
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.05
PRK13768	253	GTPase; Provisional	99.02
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.0
COG1217	603	TypA Predicted membrane GTPase involved in stress	98.96
CHL00071	409	tufA elongation factor Tu	98.95
PRK00049	396	elongation factor Tu; Reviewed	98.94
PRK12740	668	elongation factor G; Reviewed	98.94
PLN03127	447	Elongation factor Tu; Provisional	98.92
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.92
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.92
PLN03126	478	Elongation factor Tu; Provisional	98.88
COG1084	346	Predicted GTPase [General function prediction only	98.88
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.88
COG0536	369	Obg Predicted GTPase [General function prediction	98.87
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.87
PTZ00141	446	elongation factor 1- alpha; Provisional	98.85
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.85
PRK12739	691	elongation factor G; Reviewed	98.84
KOG0090|consensus	238		98.83
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.82
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.81
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.79
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.79
KOG1707|consensus	625		98.78
KOG1191|consensus	531		98.73
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.72
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.72
KOG1423|consensus	379		98.7
KOG0705|consensus	749		98.7
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.68
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.67
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.67
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	98.62
PRK13796	365	GTPase YqeH; Provisional	98.61
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.59
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.59
COG1163	365	DRG Predicted GTPase [General function prediction	98.58
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.54
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.53
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.52
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.52
COG0218	200	Predicted GTPase [General function prediction only	98.51
KOG1144|consensus	1064		98.51
KOG1490|consensus	620		98.5
PRK01889	356	GTPase RsgA; Reviewed	98.48
KOG0099|consensus	379		98.45
PRK00007	693	elongation factor G; Reviewed	98.44
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.4
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.37
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.37
PRK09602	396	translation-associated GTPase; Reviewed	98.36
PRK07560	731	elongation factor EF-2; Reviewed	98.36
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.32
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.3
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.29
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.26
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.23
COG1162	301	Predicted GTPases [General function prediction onl	98.22
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.17
KOG0461|consensus	522		98.12
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.12
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.11
PTZ00416	836	elongation factor 2; Provisional	98.09
KOG0458|consensus	603		98.07
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.02
COG3596	296	Predicted GTPase [General function prediction only	98.02
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.01
KOG3905|consensus	473		97.99
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.97
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.95
KOG0085|consensus	359		97.94
KOG0468|consensus	971		97.93
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.86
KOG3886|consensus	295		97.85
PTZ00258	390	GTP-binding protein; Provisional	97.81
KOG1532|consensus	366		97.8
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.74
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.69
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.59
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	97.58
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.57
cd03110	179	Fer4_NifH_child This protein family's function is	97.53
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.39
KOG0466|consensus	466		97.34
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.31
KOG0465|consensus	721		97.24
PRK09601	364	GTP-binding protein YchF; Reviewed	97.23
KOG3887|consensus	347		97.23
KOG0460|consensus	449		97.12
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	97.11
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	97.09
COG1161	322	Predicted GTPases [General function prediction onl	96.79
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	96.71
KOG0467|consensus	887		96.66
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.56
KOG1424|consensus	562		96.52
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.48
KOG0464|consensus	753		96.44
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	96.37
KOG1954|consensus	532		96.22
KOG0410|consensus	410		96.07
KOG1486|consensus	364		95.94
KOG1143|consensus	591		95.9
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	95.73
KOG0469|consensus	842		95.58
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.56
COG1149	284	MinD superfamily P-loop ATPase containing an inser	95.35
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	95.13
PRK10416	318	signal recognition particle-docking protein FtsY;	95.02
KOG0459|consensus	501		94.89
PHA02518	211	ParA-like protein; Provisional	94.76
PRK14974	336	cell division protein FtsY; Provisional	94.53
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.5
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	94.44
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	94.39
KOG4273|consensus	418		94.23
KOG0448|consensus	749		94.12
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	94.06
cd02036	179	MinD Bacterial cell division requires the formatio	94.02
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	93.88
cd03111	106	CpaE_like This protein family consists of proteins	93.58
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	93.5
KOG2484|consensus	435		93.5
cd02117	212	NifH_like This family contains the NifH (iron prot	93.25
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	92.51
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	92.49
PF09419	168	PGP_phosphatase: Mitochondrial PGP phosphatase; In	92.44
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	92.18
KOG0447|consensus	980		91.73
KOG3929|consensus	363		91.73
KOG2423|consensus	572		91.43
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	91.19
KOG2486|consensus	320		91.03
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	90.92
cd02032	267	Bchl_like This family of proteins contains bchL an	90.85
cd03112	158	CobW_like The function of this protein family is u	90.84
CHL00175	281	minD septum-site determining protein; Validated	90.6
TIGR00959	428	ffh signal recognition particle protein. This mode	90.06
PRK10818	270	cell division inhibitor MinD; Provisional	88.92
COG0012	372	Predicted GTPase, probable translation factor [Tra	88.68
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	88.28
PRK00771	437	signal recognition particle protein Srp54; Provisi	87.98
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	87.98
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	87.42
KOG0463|consensus	641		87.31
PRK13849	231	putative crown gall tumor protein VirC1; Provision	87.25
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	85.37
cd02040	270	NifH NifH gene encodes component II (iron protein)	85.3
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	84.23
cd03114	148	ArgK-like The function of this protein family is u	84.18
COG0523	323	Putative GTPases (G3E family) [General function pr	83.94
PRK10867	433	signal recognition particle protein; Provisional	83.4
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	83.14
cd03115	173	SRP The signal recognition particle (SRP) mediates	83.08
PF10087	97	DUF2325: Uncharacterized protein conserved in bact	81.75
CHL00072	290	chlL photochlorophyllide reductase subunit L	81.39
KOG2485|consensus	335		80.91
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	80.86

>KOG0084|consensus

Probab=100.00  E-value=3.4e-38  Score=210.91  Aligned_cols=148  Identities=33%  Similarity=0.550  Sum_probs=140.1

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |.++.|.+.|..|+|..| .+.+.++|+.+++|+|||+||+||+++..+|+++|||||+|||+++.+||..+..|+.++.
T Consensus        29 f~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~  108 (205)
T KOG0084|consen   29 FKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQESFNNVKRWIQEID  108 (205)
T ss_pred             hccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHHhhhHHHHHHHhh
Confidence            467899999999999887 8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ++.. .++|.++||||+|+.+.+.++.++++.|+.+++++ ++|+||+++.|++++|..+...+.+++...
T Consensus       109 ~~~~-~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~  178 (205)
T KOG0084|consen  109 RYAS-ENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLH  178 (205)
T ss_pred             hhcc-CCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccC
Confidence            9875 67899999999999999999999999999999999 999999999999999999999998777543

>KOG0078|consensus

Probab=100.00  E-value=2.3e-36  Score=204.66  Aligned_cols=149  Identities=34%  Similarity=0.543  Sum_probs=140.2

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.++.|...|..|+|-.| .+++..+|.++++|+|||+|+++|+.+...|+++|+++++|||+++..||+++..|+..|.
T Consensus        32 f~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~  111 (207)
T KOG0078|consen   32 FSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSFENIRNWIKNID  111 (207)
T ss_pred             hhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHH
Confidence            468899999999999666 8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      +... .++|.++||||+|+.+.+.++.+.+..+|.++|++++|+||++|.||+++|-.+.+.+..+.+..+
T Consensus       112 e~a~-~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~~~  181 (207)
T KOG0078|consen  112 EHAS-DDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLEDAE  181 (207)
T ss_pred             hhCC-CCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcchhh
Confidence            9875 589999999999999999999999999999999999999999999999999999999997665543

>KOG0092|consensus

Probab=100.00  E-value=1.4e-36  Score=202.43  Aligned_cols=149  Identities=30%  Similarity=0.488  Sum_probs=139.2

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+.+.|.+...||||..| .+.+.+++..+++.||||+|+++|.++.+.|+++|+++|+|||+++.+||..++.|++.+.
T Consensus        25 fvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~  104 (200)
T KOG0092|consen   25 FVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESFEKAKNWVKELQ  104 (200)
T ss_pred             hhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHHHHHHHHHHHHH
Confidence            567899999999999777 8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      +... +++-+.+||||+|+.+.++++.+++..+|+..|+.|+|+||++|.|++++|..|.+.+........
T Consensus       105 ~~~~-~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~  174 (200)
T KOG0092|consen  105 RQAS-PNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQER  174 (200)
T ss_pred             hhCC-CCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCcccccc
Confidence            8775 677777899999999999999999999999999999999999999999999999999987776544

>KOG0094|consensus

Probab=100.00  E-value=3.7e-36  Score=200.81  Aligned_cols=146  Identities=34%  Similarity=0.521  Sum_probs=137.3

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+.+.|..+|++|||..| ++++.+.|.++.+|+|||+|||||+++.+.|++++.++|+|||+++..||++...|+..+.
T Consensus        42 f~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~  121 (221)
T KOG0094|consen   42 FMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVR  121 (221)
T ss_pred             HHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchHHHHHHHHHHHH
Confidence            467899999999999666 9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +..+..++-+++||||.||.++++++.+++...|++++..|+++||+.|.||.++|..|...+....
T Consensus       122 ~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~  188 (221)
T KOG0094|consen  122 RERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGME  188 (221)
T ss_pred             hccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCcc
Confidence            9987667788899999999999999999999999999999999999999999999999888776553

>KOG0098|consensus

Probab=100.00  E-value=1.6e-35  Score=196.35  Aligned_cols=146  Identities=29%  Similarity=0.496  Sum_probs=138.4

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+++.|.+.+..|+|..| .+.++++++++++++|||+|+++|++...+|+++|-|+|+|||++..+||.++..|+..+.
T Consensus        26 f~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~sF~hL~~wL~D~r  105 (216)
T KOG0098|consen   26 FTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRESFNHLTSWLEDAR  105 (216)
T ss_pred             HhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhhHHHHHHHHHHHH
Confidence            578899999999999888 8899999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ++.. ++..++++|||+|+...+.++.+++..||+++|+.+.++||+++.|+++.|......+++...
T Consensus       106 q~~~-~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q  172 (216)
T KOG0098|consen  106 QHSN-ENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQ  172 (216)
T ss_pred             HhcC-CCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            9853 788999999999999999999999999999999999999999999999999999999987653

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=6.9e-34  Score=196.01  Aligned_cols=148  Identities=28%  Similarity=0.489  Sum_probs=134.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .++.|.+.|.||++..+ ...+.+++..+.+++||++|+++|..+++.+++++|++|+|||+++++||+.+..|++++.+
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~  106 (189)
T cd04121          27 QDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDE  106 (189)
T ss_pred             HcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            45788889999998666 67788899999999999999999999999999999999999999999999999999999977


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKN  152 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~  152 (159)
                      ..  ++.|+++||||.|+.+.+.++.+++..+++..++++++|||++|.||+++|+++++.+..+++....
T Consensus       107 ~~--~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~~~~~  175 (189)
T cd04121         107 HA--PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHGRPPQ  175 (189)
T ss_pred             hC--CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHhcCCCCC
Confidence            64  5799999999999988888999999999999999999999999999999999999988877655443

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

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=1.4e-33  Score=196.20  Aligned_cols=145  Identities=30%  Similarity=0.523  Sum_probs=131.4

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.++|.||++..+ .+.+.+++..+++++|||+|+++|.+++..|++++|++|+|||+++++||+.+..|+..+.
T Consensus        20 ~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~   99 (202)
T cd04120          20 FTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMID   99 (202)
T ss_pred             HHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence            457889999999999665 7788999999999999999999999999999999999999999999999999999999887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +.. ..+.|+++||||+|+.+.+.++.+++.++++++ ++.+++|||++|.||+++|+++++.+....
T Consensus       100 ~~~-~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~~  166 (202)
T cd04120         100 KYA-SEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM  166 (202)
T ss_pred             HhC-CCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhC
Confidence            654 357999999999999888889999999999886 789999999999999999999999887643

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

>KOG0079|consensus

Probab=100.00  E-value=5.4e-34  Score=182.70  Aligned_cols=143  Identities=33%  Similarity=0.495  Sum_probs=135.8

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      -++.|.++|..|+|..| .+++.++|..++++|||++|+++|+.+...|+++.+++++|||+++.+||.++.+|++++..
T Consensus        29 ~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~  108 (198)
T KOG0079|consen   29 ADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRN  108 (198)
T ss_pred             hhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhhhHhHHHHHHHHHh
Confidence            35689999999999776 89999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+  +.+|-++||||.|.++.+.+..++++.||.+.|+.+||+||+.+.|++..|..|.+++.+.+
T Consensus       109 nc--dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k  172 (198)
T KOG0079|consen  109 NC--DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAK  172 (198)
T ss_pred             cC--ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHH
Confidence            76  67999999999999999999999999999999999999999999999999999999988766

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=3.3e-33  Score=191.72  Aligned_cols=141  Identities=28%  Similarity=0.443  Sum_probs=128.4

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~   80 (159)
                      ++.+.|.++|.||+++.+.+.+.+++..+.+++|||+|+++|..+++.+++++|++++|||+++++||+.+ ..|++.+.
T Consensus        25 ~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~  104 (182)
T cd04172          25 FAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQ  104 (182)
T ss_pred             HHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            45788999999999988888889999999999999999999999999999999999999999999999997 79999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCCC-HHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLRI-PYIECSAKVRIN-VDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~-i~~~~~~l~~~~~  144 (159)
                      +..  ++.|+++||||+|+.+            .+.++.+++.++|+++++ +|+||||++|.| |+++|+.+++.++
T Consensus       105 ~~~--~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         105 EFC--PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             HHC--CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence            865  5789999999999854            356899999999999995 899999999998 9999999998654

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=6.1e-33  Score=196.23  Aligned_cols=146  Identities=22%  Similarity=0.373  Sum_probs=131.3

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~   80 (159)
                      ++.+.|.++|.||++..+...+.+++..+.++||||+|+++|..+++.+++++|++++|||+++++||+.+ ..|+..+.
T Consensus        33 ~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~  112 (232)
T cd04174          33 LAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIM  112 (232)
T ss_pred             HhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHH
Confidence            45778999999999988877888999999999999999999999999999999999999999999999985 79999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCC-CHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLRI-PYIECSAKVRI-NVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~-~i~~~~~~l~~~~~~~  146 (159)
                      ...  ++.|+++||||+|+.+            .+.++.+++.++|+++++ +|+||||++|. ||+++|..++..+.+.
T Consensus       113 ~~~--~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         113 DYC--PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             HhC--CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHh
Confidence            765  5789999999999864            367899999999999998 59999999997 8999999999998875


Q ss_pred             ccc
Q psy11289        147 TKQ  149 (159)
Q Consensus       147 ~~~  149 (159)
                      ..+
T Consensus       191 ~~~  193 (232)
T cd04174         191 LSP  193 (232)
T ss_pred             ccc
Confidence            433

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.

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=2.6e-33  Score=191.24  Aligned_cols=141  Identities=30%  Similarity=0.593  Sum_probs=128.0

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~   80 (159)
                      ++.+.|..+|.||+++.+.+.+.+++..+++++|||+|+++|..+++.++++++++|+|||+++++||+.+ ..|+..+.
T Consensus        21 ~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~  100 (176)
T cd04133          21 YTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELR  100 (176)
T ss_pred             HhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHH
Confidence            46788999999999988877788899999999999999999999999999999999999999999999998 68999987


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcC----------CCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQR----------QVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +..  ++.|+++||||+|+.+.+          .++.+++.++++..++ +++||||++|.||+++|+.+++.+.
T Consensus       101 ~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         101 HYA--PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             HhC--CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence            765  579999999999996543          4889999999999998 5999999999999999999999764

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,

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=5.6e-33  Score=192.08  Aligned_cols=145  Identities=32%  Similarity=0.551  Sum_probs=129.1

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++.+.|.++|.||+++.+.+.+.+++..+.+++|||+|+++|..+++.+++++|++|+|||+++++||+.+. .|+..+.
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~  102 (191)
T cd01875          23 YTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVC  102 (191)
T ss_pred             HHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            456889999999999888777788999999999999999999999999999999999999999999999997 6888777


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...  +++|+++||||.|+.+.            +.++.+++..+++.++ +++++|||++|.|++++|+++++.+....
T Consensus       103 ~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~~~  180 (191)
T cd01875         103 HHC--PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPT  180 (191)
T ss_pred             hhC--CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhccc
Confidence            654  57999999999999654            2467788999999998 58999999999999999999999998765


Q ss_pred             c
Q psy11289        148 K  148 (159)
Q Consensus       148 ~  148 (159)
                      .
T Consensus       181 ~  181 (191)
T cd01875         181 P  181 (191)
T ss_pred             c
Confidence            3

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

>KOG0080|consensus

Probab=100.00  E-value=9.6e-34  Score=183.84  Aligned_cols=146  Identities=32%  Similarity=0.485  Sum_probs=137.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+++.|.+..+.|||..| .+.+.++|..+++-||||+|+++|+.+.++|+++|-++|+|||++.+++|..+..|++++.
T Consensus        31 Fv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld  110 (209)
T KOG0080|consen   31 FVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELD  110 (209)
T ss_pred             HHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHH
Confidence            456788888888899887 8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+...+++-.++||||+|...++.++.+++..||+++++.++||||++.+|+...|+.++..|++-.
T Consensus       111 ~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~tp  177 (209)
T KOG0080|consen  111 LYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIETP  177 (209)
T ss_pred             hhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcCc
Confidence            9998888889999999998878999999999999999999999999999999999999999998644

>PTZ00099 rab6; Provisional

Probab=100.00  E-value=2.1e-32  Score=186.74  Aligned_cols=143  Identities=29%  Similarity=0.481  Sum_probs=129.8

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|.++|.||+|..+ .+.+.+++..++++||||+|++++..++..+++++|++|+|||+++++||+.+..|+..+...
T Consensus         2 ~~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~   81 (176)
T PTZ00099          2 YDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNE   81 (176)
T ss_pred             CCCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4689999999999665 777889999999999999999999999999999999999999999999999999999998776


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. .++|+++||||+|+.+.+.++.+++..+++.+++.++++||++|.|++++|+++++.+.+..
T Consensus        82 ~~-~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099         82 RG-KDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             cC-CCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            43 57899999999999877778888999999999999999999999999999999999886533

>KOG0091|consensus

Probab=100.00  E-value=1.4e-33  Score=183.57  Aligned_cols=148  Identities=31%  Similarity=0.510  Sum_probs=134.4

Q ss_pred             cccccccccccccccce-EEEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDS-YTKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~-~~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      +.+|.|.+--.||+|.. |.+.+.. .|..+++|+|||+|+++|++...+|++++-|+++|||+++.+||+++..|+.+.
T Consensus        28 ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr~sfehv~~w~~ea  107 (213)
T KOG0091|consen   28 FTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNRESFEHVENWVKEA  107 (213)
T ss_pred             HhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccchhhHHHHHHHHHHH
Confidence            46889999999999955 4777777 689999999999999999999999999999999999999999999999999998


Q ss_pred             HhhcCCCCCcE-EEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         80 LRVKDRDEFPM-LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        80 ~~~~~~~~~p~-ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ..+...+..++ .+||+|+|+...++++.+++..+|+.+|+.++|+||++|.|+++.|.-+.+.+.....+
T Consensus       108 ~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  108 AMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQ  178 (213)
T ss_pred             HHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhc
Confidence            88876565554 57999999999999999999999999999999999999999999999999988876654

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=2.3e-32  Score=186.11  Aligned_cols=148  Identities=50%  Similarity=0.808  Sum_probs=133.8

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+.+.||+++.+...+.+++..+.+++||++|++++..+++.+++++|++++|||+++++||+.+..|+..+.+
T Consensus        22 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~  101 (172)
T cd04141          22 FISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITR  101 (172)
T ss_pred             HHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHH
Confidence            35678989999999988877888999999999999999999999999999999999999999999999999999888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      .....++|+++||||+|+.+.+.++.+++..+++.+++++++|||++|.||+++|+++++.+.+...+
T Consensus       102 ~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~  169 (172)
T cd04141         102 VRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRKESM  169 (172)
T ss_pred             hcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHhccC
Confidence            64446799999999999987788999999999999999999999999999999999999988865443

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

>KOG0087|consensus

Probab=100.00  E-value=2.4e-33  Score=189.49  Aligned_cols=147  Identities=29%  Similarity=0.483  Sum_probs=137.4

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +..+.|..+-.+|||..| ...+.++++.++.|||||+||+||+.....|+++|.|+++|||++...+|+++.+|+.++.
T Consensus        34 ftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELR  113 (222)
T KOG0087|consen   34 FTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITRRQTFENVERWLKELR  113 (222)
T ss_pred             hcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechhHHHHHHHHHHHHHHH
Confidence            456788889999999776 8899999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ...+ +++++++||||+||.+.+.++.++++.+|+..++.++++||+++.|+.++|+.++..|.....+
T Consensus       114 dhad-~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~  181 (222)
T KOG0087|consen  114 DHAD-SNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVSK  181 (222)
T ss_pred             hcCC-CCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHHH
Confidence            8865 6899999999999999999999999999999999999999999999999999999988865533

>KOG0093|consensus

Probab=100.00  E-value=4.4e-33  Score=178.32  Aligned_cols=146  Identities=32%  Similarity=0.513  Sum_probs=134.8

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |.++.|...|-.|.|..| .+++--+.+.+++|+|||.|+++|+.+...++++++|+|++||+++.+||..++.|.-+|.
T Consensus        41 y~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeSf~svqdw~tqIk  120 (193)
T KOG0093|consen   41 YADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNSVQDWITQIK  120 (193)
T ss_pred             hhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHHHHHHHHHHHHhe
Confidence            467889999999999777 5655557788999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .+.. .+.|+|++|||||+..++.++.+.++++++++|+.++|+||+.+.|+.++|+.++..+-+.+.
T Consensus       121 tysw-~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  121 TYSW-DNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMS  187 (193)
T ss_pred             eeec-cCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence            9875 689999999999999999999999999999999999999999999999999999998876553

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=1.4e-32  Score=188.12  Aligned_cols=141  Identities=26%  Similarity=0.419  Sum_probs=127.6

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~   80 (159)
                      ++.+.|.++|.||+++.+.+.+.+++..+.+++|||+|+++|..+++.+++++|++|+|||+++++||+++ ..|+..+.
T Consensus        21 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~  100 (178)
T cd04131          21 FAKDCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQ  100 (178)
T ss_pred             HHhCcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHH
Confidence            35678999999999988888889999999999999999999999999999999999999999999999996 79999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCCC-HHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLRI-PYIECSAKVRIN-VDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~-i~~~~~~l~~~~~  144 (159)
                      +..  ++.|+++||||+|+.+            .+.++.+++.++|+++++ +++||||++|.| |+++|..++++.+
T Consensus       101 ~~~--~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         101 EFC--PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             HHC--CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            875  5789999999999854            346889999999999997 799999999995 9999999999654

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.

>KOG0394|consensus

Probab=100.00  E-value=3.6e-33  Score=184.85  Aligned_cols=147  Identities=36%  Similarity=0.601  Sum_probs=134.3

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+.+.|...|..|||..| .+.+.++++.+++|+|||+|++||+++...+++++|.+++|||++++.||+.+..|.++++
T Consensus        29 yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl  108 (210)
T KOG0394|consen   29 YVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSFENLENWRKEFL  108 (210)
T ss_pred             HHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhhccHHHHHHHHH
Confidence            456789999999999666 9999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCC---CCCcEEEEEeCCCCCC--cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDR---DEFPMLMVGNKADLDH--QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~---~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .....   ...|.|++|||.|+.+  .+.++...++++|+..| +||+|+||+.+.||+++|+.+.+.++....
T Consensus       109 ~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  109 IQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANED  182 (210)
T ss_pred             HhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence            87752   2579999999999965  38899999999999887 999999999999999999999998886653

>KOG0081|consensus

Probab=100.00  E-value=1.4e-32  Score=178.25  Aligned_cols=149  Identities=32%  Similarity=0.513  Sum_probs=136.8

Q ss_pred             cccccccccccccccceE-EEEEEEC---------CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVID---------DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~---------~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   71 (159)
                      |.++.|.+.+..|+|-.| .+.+..+         +..+++|+|||+|+++|+++...++++|.+++++||++++.||.+
T Consensus        29 YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLn  108 (219)
T KOG0081|consen   29 YTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLN  108 (219)
T ss_pred             ecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEeccchHHHHH
Confidence            678999999999999776 6666552         257899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      +..|+.++.......+.-+|++|||+|+.+.+.++.+++.++|.++|+||+|+||-+|.|+.+..+-++..++++..+.
T Consensus       109 vrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~~  187 (219)
T KOG0081|consen  109 VRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQC  187 (219)
T ss_pred             HHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHHH
Confidence            9999999988877777889999999999999999999999999999999999999999999999999999999887654

>KOG0083|consensus

Probab=100.00  E-value=1.2e-32  Score=173.87  Aligned_cols=144  Identities=29%  Similarity=0.524  Sum_probs=133.0

Q ss_pred             ccccc-cccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYF-VTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f-~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      .+|.| ..++.+|+|-.| .+.+..+++++++|+|||+|+++|++....|++++|+++++||+.+..||++++.|+.+|.
T Consensus        18 kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~   97 (192)
T KOG0083|consen   18 KDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIH   97 (192)
T ss_pred             ccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHH
Confidence            45666 567899999777 7889999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ++.. ..+.+.++|||+|+..++.+..+++..+++.+++|+.|+||++|.|++-.|-.+.+.+.+..
T Consensus        98 ey~k-~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen   98 EYAK-EAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             HHHH-hhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence            9875 56788999999999998999999999999999999999999999999999999999887654

>KOG0086|consensus

Probab=100.00  E-value=5.9e-32  Score=174.38  Aligned_cols=146  Identities=30%  Similarity=0.495  Sum_probs=135.8

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +++..|..+-..|+|..| ++.+.++++.+++|+|||+|+++|++..+.|+++|.+.++|||+++.+||+.+..|+..+.
T Consensus        29 Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR  108 (214)
T KOG0086|consen   29 FIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDAR  108 (214)
T ss_pred             HHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHHH
Confidence            467889999999999888 8999999999999999999999999999999999999999999999999999999999987


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .... +++-++++|||.|+.+.++++..++..||++..+-++|+||++|.|+++.|-...+.++.+.+
T Consensus       109 ~lAs-~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE  175 (214)
T KOG0086|consen  109 TLAS-PNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIE  175 (214)
T ss_pred             hhCC-CcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHh
Confidence            7654 688899999999999999999999999999999999999999999999999988888776553

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=2.8e-31  Score=181.28  Aligned_cols=140  Identities=30%  Similarity=0.546  Sum_probs=124.8

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++.+.|.++|.||+++.+...+.+++..+.+++||++|+++|..++..+++++|++|+|||+++++||+.+. .|+..+.
T Consensus        21 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~  100 (175)
T cd01874          21 YTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEIT  100 (175)
T ss_pred             HHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            456889999999999888777888999999999999999999999999999999999999999999999997 5988887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ...  +++|+++||||+|+.+.            +.++.+++.+++++.+ +.+++|||++|.|++++|+.++.+.
T Consensus       101 ~~~--~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         101 HHC--PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             HhC--CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            654  57899999999998543            5678888999999887 6899999999999999999999864

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

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=6.1e-31  Score=181.63  Aligned_cols=148  Identities=61%  Similarity=0.959  Sum_probs=134.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++.|...+.||++..+.+.+.+++..+.+++|||+|+++|..++..+++++|++++|||++++++|+.+..|+..+.+.
T Consensus        26 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~  105 (189)
T PTZ00369         26 IQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRV  105 (189)
T ss_pred             hcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46788889999999888888899999999999999999999999999999999999999999999999999999998877


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ....+.|+++|+||+|+.+.+.++..++..+++.++++++++||++|.|+.++|+++++.+.+..++.
T Consensus       106 ~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~~~~  173 (189)
T PTZ00369        106 KDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKED  173 (189)
T ss_pred             cCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHhhcc
Confidence            55568899999999999777778888888899888999999999999999999999999888775544

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=8.2e-31  Score=181.12  Aligned_cols=148  Identities=48%  Similarity=0.798  Sum_probs=133.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+++.||+++.+...+.+++..+.+++|||+|+++|..++..+++++|++|+|||+++++||+.+..|+..+...
T Consensus        20 ~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~   99 (190)
T cd04144          20 CLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRV   99 (190)
T ss_pred             HhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            46789999999999888777888999999999999999999999999999999999999999999999999999988776


Q ss_pred             cC--CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         83 KD--RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ..  ..+.|+++||||+|+.+.+.++..++..+++.++++++++||++|.|++++|+++++.+.++....
T Consensus       100 ~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~~~~  169 (190)
T cd04144         100 KDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQRQGG  169 (190)
T ss_pred             hcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhhccc
Confidence            43  257899999999999877888888888999999999999999999999999999999888666554

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.

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=8.8e-31  Score=177.21  Aligned_cols=142  Identities=31%  Similarity=0.529  Sum_probs=129.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.++++||++..+ .+.+.+++..+++++||+||++++..++..+++++|++++|||+++++||+.+..|+..+..
T Consensus        23 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~  102 (166)
T cd04122          23 TEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARN  102 (166)
T ss_pred             hcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            46789999999999776 67788899999999999999999999999999999999999999999999999999998876


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... ++.|+++||||+|+.+.+.++.+++..+++..++++++|||++|.|+.++|.+++..+.+
T Consensus       103 ~~~-~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         103 LTN-PNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             hCC-CCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            543 578999999999998888888899999999999999999999999999999999988754

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.98  E-value=1.8e-30  Score=175.28  Aligned_cols=142  Identities=49%  Similarity=0.846  Sum_probs=129.5

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+++.||+++.+.+.+.+++..+.+++|||+|++++.+++..+++++|++++|||++++++|+.+..|+..+...
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~  101 (164)
T cd04175          22 VQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRV  101 (164)
T ss_pred             HhCCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46788899999999888888888999999999999999999999999999999999999999999999999999999876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+.|+++|+||+|+.+...++.+++..+++.++++++++||++|.|++++|.++++.+.
T Consensus       102 ~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l~  163 (164)
T cd04175         102 KDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQIN  163 (164)
T ss_pred             cCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHhh
Confidence            55568999999999999877777777888899889999999999999999999999998663

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.98  E-value=1.5e-30  Score=175.20  Aligned_cols=141  Identities=50%  Similarity=0.865  Sum_probs=128.3

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+++.||+++.+.+.+.+++..+.+++|||+|+++|..+++.+++++|++++|||++++++++.+..|+..+...
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~  101 (163)
T cd04136          22 VQGIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRV  101 (163)
T ss_pred             HhCCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46788899999999888888889999999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ....++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|+.++|+++++.+
T Consensus       102 ~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         102 KDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             cCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            5556789999999999977777778888888888889999999999999999999998764

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.

>KOG0088|consensus

Probab=99.98  E-value=1.4e-32  Score=178.20  Aligned_cols=145  Identities=34%  Similarity=0.560  Sum_probs=135.5

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+++.|......|+..+| .+.+.+++....+.||||+|+++|..+.+.|+++++++++|||++|++||+.++.|..++.
T Consensus        33 y~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr  112 (218)
T KOG0088|consen   33 YVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELR  112 (218)
T ss_pred             HHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHH
Confidence            678999999999999777 8999999999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...+ ..+.+++||||+|+.+++.++.+++..+|+.-|..++++||+++.||.++|+.+.....+..
T Consensus       113 ~mlG-nei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~  178 (218)
T KOG0088|consen  113 TMLG-NEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHS  178 (218)
T ss_pred             HHhC-CeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHh
Confidence            8765 46889999999999999999999999999999999999999999999999999987766554

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.97  E-value=2.4e-30  Score=182.13  Aligned_cols=145  Identities=21%  Similarity=0.372  Sum_probs=127.7

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++.+.|+++|.||+++.+...+.+++..+.++||||+|++.|..+++.+++++|++|+|||+++++||+.+. .|...+.
T Consensus        21 ~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~  100 (222)
T cd04173          21 FAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQ  100 (222)
T ss_pred             HHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            456789999999999888888899999999999999999999999999999999999999999999999995 6777665


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCC-HHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRIN-VDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~-i~~~~~~l~~~~~~~  146 (159)
                      ...  ++.|+++||||+|+.+.            ..++.+++..++++.|+ +|+||||+++.| |.++|+.++.+.+.+
T Consensus       101 ~~~--~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~  178 (222)
T cd04173         101 EFC--PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGR  178 (222)
T ss_pred             hhC--CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhc
Confidence            543  67999999999998542            24788899999999995 899999999885 999999999988765


Q ss_pred             cc
Q psy11289        147 TK  148 (159)
Q Consensus       147 ~~  148 (159)
                      ..
T Consensus       179 ~~  180 (222)
T cd04173         179 GH  180 (222)
T ss_pred             cC
Confidence            43

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

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.97  E-value=2.6e-30  Score=179.57  Aligned_cols=141  Identities=28%  Similarity=0.511  Sum_probs=124.9

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|.+.|.||+|..+ .+.+.+++..++++||||+|+++|..+++.++++++++|+|||+++++||+.+..|+..+.
T Consensus        15 ~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~   94 (200)
T smart00176       15 HLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLV   94 (200)
T ss_pred             HhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHH
Confidence            356789899999999655 7778889999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +..  .++|+++||||+|+.. +.+..+. ..+++..++++++|||++|.||.++|++++..+.+.
T Consensus        95 ~~~--~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       95 RVC--ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HhC--CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            865  5799999999999864 4455544 478888899999999999999999999999988764

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

>KOG0095|consensus

Probab=99.97  E-value=2.7e-31  Score=170.72  Aligned_cols=145  Identities=26%  Similarity=0.435  Sum_probs=133.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+|-|++....|+|..| .+++.++|+++++++|||+|+++|++...+|++.|+++|+|||++-..||+-++.|+.+|.
T Consensus        27 ftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydiscqpsfdclpewlreie  106 (213)
T KOG0095|consen   27 FTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISCQPSFDCLPEWLREIE  106 (213)
T ss_pred             hhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEecccCcchhhhHHHHHHHH
Confidence            457889999999999776 9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ++.. ..+--|+||||.|+.+.++++.+.+.+|++....-++|+||+..+|++.+|..+...+....
T Consensus       107 ~yan-~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~a  172 (213)
T KOG0095|consen  107 QYAN-NKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISEA  172 (213)
T ss_pred             HHhh-cceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHHH
Confidence            9975 45677899999999999999999999999998888999999999999999999887766443

>cd04127 Rab27A Rab27a subfamily

Probab=99.97  E-value=7.4e-30  Score=174.67  Aligned_cols=144  Identities=32%  Similarity=0.532  Sum_probs=127.6

Q ss_pred             ccccccccccccccceE-EEEEEEC----------CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVID----------DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~----------~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   71 (159)
                      ..+.|.+.+.||++..+ ...+..+          +..+.++|||++|++++..++..+++++|++++|||+++++||.+
T Consensus        25 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~  104 (180)
T cd04127          25 TDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNEQSFLN  104 (180)
T ss_pred             hcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHH
Confidence            46788999999999665 5555554          457889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +..|+..+.......+.|+++||||+|+.+.+.++.+++.++++.++++++++||++|.|++++|+++++.+.++
T Consensus       105 ~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         105 VRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             HHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            999999988765446789999999999988788888899999999999999999999999999999999887653

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.97  E-value=6.8e-30  Score=172.21  Aligned_cols=142  Identities=41%  Similarity=0.783  Sum_probs=127.9

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+.+.||+++.+...+.+++..+.++|||++|+++|..+++.+++++|++++|||+++++||+++..|+..+.+
T Consensus        21 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~  100 (163)
T cd04176          21 FVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVR  100 (163)
T ss_pred             HHcCCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35678889999999877788888899999999999999999999999999999999999999999999999999999888


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .....++|+++|+||+|+.+...+...++..+++..+++++++||++|.|+.++|.++++.+
T Consensus       101 ~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         101 VKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             hcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            65446799999999999977677777788888888899999999999999999999998754

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.97  E-value=4.6e-30  Score=177.27  Aligned_cols=152  Identities=30%  Similarity=0.498  Sum_probs=131.2

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      +..+.|.+.|.||+++.+...+.+++..+.+++||++|+++|..+++.+++++|++++|||+++++||+.+. .|+..+.
T Consensus        20 ~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~   99 (189)
T cd04134          20 FTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIR   99 (189)
T ss_pred             HhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            346788889999999888777788898899999999999999999999999999999999999999999987 6998887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcC------------CCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...  .+.|+++||||+|+.+.+            .++.+++..+++..+ +++++|||++|.|++++|+++++.+....
T Consensus       100 ~~~--~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~~~  177 (189)
T cd04134         100 EHC--PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVALNVR  177 (189)
T ss_pred             HhC--CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhccc
Confidence            654  578999999999986543            356777888888877 78999999999999999999999998777


Q ss_pred             ccCCCCcc
Q psy11289        148 KQCKNSTV  155 (159)
Q Consensus       148 ~~~~~~~~  155 (159)
                      +..+.++.
T Consensus       178 ~~~~~~~~  185 (189)
T cd04134         178 PPHPHSSA  185 (189)
T ss_pred             ccCcCCCc
Confidence            66555543

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.97  E-value=1.1e-29  Score=170.95  Aligned_cols=142  Identities=43%  Similarity=0.751  Sum_probs=132.0

Q ss_pred             ccccccccccccccc-ceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.+++.||++ +.+.+.+.+++..+.+++||++|+++|..+...+++++|++|+|||+++++||+.+..|+..+.
T Consensus        19 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~   98 (162)
T PF00071_consen   19 LINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQ   98 (162)
T ss_dssp             HHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHH
T ss_pred             HHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            356789999999997 5558999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .... .+.|++++|||.|+.+.+.++.+++..+++++++++++|||+++.|+.++|..+++.+.
T Consensus        99 ~~~~-~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen   99 KYKP-EDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HHST-TTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             cccc-ccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            8874 46899999999999888999999999999999999999999999999999999999875

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 ....

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.97  E-value=8e-30  Score=177.63  Aligned_cols=146  Identities=29%  Similarity=0.465  Sum_probs=129.5

Q ss_pred             cccccccccccccccceE-EEEEEEC-CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ++.+.|.+.+.||++..+ .+.+.++ +..+.+++||++|+++|..+++.++++++++++|||+++++||+.+..|+..+
T Consensus        20 l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i   99 (201)
T cd04107          20 YVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADL   99 (201)
T ss_pred             HHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            356788899999999665 6777887 88999999999999999999999999999999999999999999999999888


Q ss_pred             HhhcC---CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         80 LRVKD---RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        80 ~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .....   ..++|+++||||+|+.+.+.++.+++.++++..+ .+++++||++|.|++++|+++++.+.+..
T Consensus       100 ~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~  171 (201)
T cd04107         100 DSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILAND  171 (201)
T ss_pred             HHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            76432   2578999999999998667788889999999999 68999999999999999999999987654

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.97  E-value=1e-29  Score=171.32  Aligned_cols=139  Identities=27%  Similarity=0.516  Sum_probs=126.8

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ .+.+.+++..+.+++||++|++++..+++.+++++|++++|||+++++||+.+..|+..+..
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~  100 (161)
T cd04117          21 TDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDE  100 (161)
T ss_pred             hcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            46789899999999665 67888899999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ... .+.|+++||||.|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.
T Consensus       101 ~~~-~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         101 YAP-EGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             hCC-CCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            642 468999999999998888888999999999999999999999999999999999864

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

>KOG0395|consensus

Probab=99.97  E-value=1.2e-29  Score=175.20  Aligned_cols=146  Identities=55%  Similarity=0.861  Sum_probs=138.2

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+.|.||+++.|.+.+.+++..+.+.|+||+|++.|..+...++++++|+++||+++++.||+.+..++.+|.+
T Consensus        23 f~~~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r  102 (196)
T KOG0395|consen   23 FLTGRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILR  102 (196)
T ss_pred             ecccccccccCCCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            56789999999999999999999999999999999999999999999999999999999999999999999999999977


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ......+|+++||||+|+...+.++.+++..++..++++++|+||+.+.+++++|..+++++-..+
T Consensus       103 ~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~~  168 (196)
T KOG0395|consen  103 VKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRLPR  168 (196)
T ss_pred             hhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHhhh
Confidence            766677899999999999999999999999999999999999999999999999999999887733

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=3.8e-30  Score=178.29  Aligned_cols=135  Identities=26%  Similarity=0.403  Sum_probs=115.7

Q ss_pred             ccccccccccccc--ceEEEE--------EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH
Q psy11289          4 ESYFVTDYDPTIE--DSYTKQ--------CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY   73 (159)
Q Consensus         4 ~~~f~~~~~pt~~--~~~~~~--------~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~   73 (159)
                      ++.|.++|.||++  +.+...        +.++|..++++||||+|+++  .+...+++++|++++|||+++++||+++.
T Consensus        30 ~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~~~~~~~~~ad~iilv~d~t~~~Sf~~~~  107 (195)
T cd01873          30 QYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--KDRRFAYGRSDVVLLCFSIASPNSLRNVK  107 (195)
T ss_pred             cccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--hhhcccCCCCCEEEEEEECCChhHHHHHH
Confidence            4567888999996  444332        26789999999999999975  34567899999999999999999999997


Q ss_pred             -HHHHHHHhhcCCCCCcEEEEEeCCCCCC-------------------cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHH
Q psy11289         74 -KFHRQILRVKDRDEFPMLMVGNKADLDH-------------------QRQVSSMDAQNVARQLRIPYIECSAKVRINVD  133 (159)
Q Consensus        74 -~~~~~i~~~~~~~~~p~ivv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  133 (159)
                       .|+..+....  ++.|+++||||+|+.+                   .+.++.+++..+|+++|++|+||||++|.||+
T Consensus       108 ~~w~~~i~~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~  185 (195)
T cd01873         108 TMWYPEIRHFC--PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVK  185 (195)
T ss_pred             HHHHHHHHHhC--CCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHH
Confidence             5998887764  5789999999999864                   47889999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q psy11289        134 QAFHELVRI  142 (159)
Q Consensus       134 ~~~~~l~~~  142 (159)
                      ++|+.++++
T Consensus       186 e~F~~~~~~  194 (195)
T cd01873         186 DVFDNAIRA  194 (195)
T ss_pred             HHHHHHHHh
Confidence            999999874

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.97  E-value=5.3e-30  Score=174.80  Aligned_cols=139  Identities=28%  Similarity=0.529  Sum_probs=123.7

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++++.|.++|.||+++.+...+.+++..+.+++|||+|+++|..+++.+++++|++|+|||+++++||+.+. .|+..+.
T Consensus        21 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~  100 (174)
T cd01871          21 YTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVR  100 (174)
T ss_pred             HhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            456889999999999888777888999999999999999999999999999999999999999999999996 6888876


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...  ++.|+++||||+|+.+.            +.++.+++..+++.++ +++++|||++|.|++++|+.+++.
T Consensus       101 ~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         101 HHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             HhC--CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            653  57999999999999542            3588899999999998 489999999999999999999864

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

>KOG0097|consensus

Probab=99.97  E-value=2.2e-30  Score=165.39  Aligned_cols=146  Identities=29%  Similarity=0.484  Sum_probs=135.8

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.++.|..+-+.|+|..| .+.+.+.|.++++++|||+|+++|+...++|++++.+.++|||++.+.++.++..|+....
T Consensus        31 ftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrstynhlsswl~dar  110 (215)
T KOG0097|consen   31 FTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDAR  110 (215)
T ss_pred             HHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhhhhhHHHHHhhhh
Confidence            457789999999999888 8899999999999999999999999999999999999999999999999999999998876


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .++..++++|||.|+...+.++.+++++|+++.|+.++++||++|.|+++.|-...+.+.+...
T Consensus       111 ~lt-npnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqniq  177 (215)
T KOG0097|consen  111 NLT-NPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQ  177 (215)
T ss_pred             ccC-CCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhh
Confidence            654 4788899999999999999999999999999999999999999999999999999999887653

>cd04128 Spg1 Spg1p

Probab=99.97  E-value=1.5e-29  Score=173.66  Aligned_cols=144  Identities=25%  Similarity=0.390  Sum_probs=123.2

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.++|.||+|..+ .+.+.+++..+.+++||++|+++|..+++.+++++|++++|||+++++||+++..|+..+.
T Consensus        20 ~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~   99 (182)
T cd04128          20 YVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQAR   99 (182)
T ss_pred             HHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence            357789999999999665 6788899999999999999999999999999999999999999999999999999999987


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC-----cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH-----QRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~-----~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +... ...| ++||||+|+..     ......+++.++++..++++++|||++|.|++++|+++++.+.+..
T Consensus       100 ~~~~-~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~~~  169 (182)
T cd04128         100 GFNK-TAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFDLP  169 (182)
T ss_pred             HhCC-CCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            7643 3456 68899999842     1112245677889889999999999999999999999999887543

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.97  E-value=2.9e-29  Score=170.57  Aligned_cols=144  Identities=27%  Similarity=0.442  Sum_probs=125.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.+.|.||++..+ .+.+.++|..+.+++||++|+++|..++..+++++|++++|||+++++++..+..|++.+.
T Consensus        20 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~   99 (170)
T cd04108          20 FCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDAL   99 (170)
T ss_pred             HhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence            356789999999999666 6788889999999999999999999999999999999999999999999999999999987


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCC--CCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQ--VSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +.......|+++|+||.|+.+...  ...+++..++++++.+++++||++|.|++++|+.++..+.+
T Consensus       100 ~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         100 KENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             HhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            754334578999999999865433  34667778888889999999999999999999999988754

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.97  E-value=3.8e-29  Score=169.40  Aligned_cols=142  Identities=33%  Similarity=0.553  Sum_probs=128.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ..+.|.+.|.||++..+ ...+..++..+.+++||++|++++..++..+++++|++++|||++++++|..+..|+..+..
T Consensus        24 ~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~  103 (167)
T cd01867          24 SEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEE  103 (167)
T ss_pred             hhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence            45788999999999665 67778899889999999999999999999999999999999999999999999999999987


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... .+.|+++||||+|+.+.+.+..+++..+++.++++++++||++|.|++++|+++++.+..
T Consensus       104 ~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         104 HAS-EDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             hCC-CCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            643 578999999999998877788888999999999999999999999999999999998864

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.97  E-value=6.2e-29  Score=168.05  Aligned_cols=141  Identities=35%  Similarity=0.584  Sum_probs=127.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ .+.+.+++..+.+++||++|++++..++..+++++|++++|||+++++|+..+..|+..+..
T Consensus        23 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~  102 (166)
T cd01869          23 ADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDR  102 (166)
T ss_pred             hcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence            45678888999999665 67788899999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++++.+.
T Consensus       103 ~~~-~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869         103 YAS-ENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             hCC-CCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            652 56899999999999887888888999999999999999999999999999999998875

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.97  E-value=5.1e-29  Score=174.74  Aligned_cols=148  Identities=33%  Similarity=0.534  Sum_probs=131.3

Q ss_pred             ccccccccccccccceE-EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|...+.||++..+ .+.+.+ ++..+.+++|||+|++++..++..+++++|++++|||+++++||+++..|+..+.
T Consensus        23 ~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~  102 (211)
T cd04111          23 TEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEAR  102 (211)
T ss_pred             HcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            45678888999998554 677777 5778999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      +.......|+++|+||.|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+...+.
T Consensus       103 ~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~~  172 (211)
T cd04111         103 SHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRG  172 (211)
T ss_pred             HhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhcC
Confidence            7754456788999999999887888889999999999999999999999999999999999988776554

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.

>cd01865 Rab3 Rab3 subfamily

Probab=99.97  E-value=6.6e-29  Score=167.90  Aligned_cols=141  Identities=33%  Similarity=0.564  Sum_probs=126.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .++.|...|.||++..+ ...+..++..+.+++||++|++++..++..+++++|++++|||++++++++.+..|+..+.+
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~  101 (165)
T cd01865          22 ADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT  101 (165)
T ss_pred             hcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            46788889999999665 56677788889999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ... .+.|+++|+||+|+.+.+.+..+++.++++.++++++++||++|.|++++|++++..+.
T Consensus       102 ~~~-~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (165)
T cd01865         102 YSW-DNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIIC  163 (165)
T ss_pred             hCC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            542 46899999999999877777788888999999999999999999999999999998764

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.97  E-value=7.5e-29  Score=167.20  Aligned_cols=142  Identities=63%  Similarity=0.976  Sum_probs=128.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++.|..++.||+++.+.+.+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|...+.+.
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~  100 (164)
T smart00173       21 VQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRV  100 (164)
T ss_pred             HhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            45678889999999888888888999999999999999999999999999999999999999999999999999888877


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++++.+.
T Consensus       101 ~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      101 KDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             cCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            65567899999999999877777788888899999999999999999999999999998765

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.97  E-value=7e-29  Score=174.56  Aligned_cols=144  Identities=25%  Similarity=0.361  Sum_probs=127.9

Q ss_pred             ccccccccccccccce-EEEEEEECC-eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~-~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +++.|.+.|.||++.. +.+.+.+++ ..+.++|||++|++.+..++..+++++|++|+|||+++++||+++..|+..+.
T Consensus        21 ~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~  100 (215)
T cd04109          21 AKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVR  100 (215)
T ss_pred             hcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            4677899999999944 577777754 67899999999999999999999999999999999999999999999999998


Q ss_pred             hhcCC--CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDR--DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +....  .+.|+++|+||.|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+...
T Consensus       101 ~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         101 KVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             HhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            86532  3568999999999987788888899999999999999999999999999999999988764

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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.97  E-value=1.1e-28  Score=166.20  Aligned_cols=141  Identities=79%  Similarity=1.192  Sum_probs=127.4

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||+++.+.....+++..+.+++|||||++++..+++.+++++|++++|||++++++++.+..|+..+.+.
T Consensus        23 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~  102 (164)
T cd04145          23 IQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRV  102 (164)
T ss_pred             HhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            45678889999999888777888999999999999999999999999999999999999999999999999999998876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ....+.|+++++||+|+...+.++.+++..+++.++++++++||++|.|+.++|+++++.+
T Consensus       103 ~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         103 KDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             hCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            5556789999999999987777778888899998899999999999999999999998754

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.97  E-value=9.2e-29  Score=166.94  Aligned_cols=143  Identities=28%  Similarity=0.480  Sum_probs=128.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ .+.+.+++..+.+++|||+|++++..++..+++++|++|+|||++++++++.+..|+..+.+
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~  100 (168)
T cd04119          21 CEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQ  100 (168)
T ss_pred             HhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence            46778889999999666 77888899999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCC----CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDR----DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ....    .+.|+++|+||+|+.+++.++.++...++...+++++++||++|.|+.++|+++++.+++
T Consensus       101 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~  168 (168)
T cd04119         101 EGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIVD  168 (168)
T ss_pred             hccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            7642    468999999999997667778888888999999999999999999999999999988753

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.97  E-value=1.4e-28  Score=165.09  Aligned_cols=140  Identities=60%  Similarity=0.927  Sum_probs=126.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|..++.||+++.+.+.+.+++..+.+++||++|++++..++..++++++++++|||++++.+++.+..|+..+.+.
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~  101 (162)
T cd04138          22 IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRV  101 (162)
T ss_pred             HhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46778899999999888888888999999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ....+.|+++|+||+|+.+ +....+++..+++.++++++++||++|.|++++|+++++.+
T Consensus       102 ~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         102 KDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             cCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            6556889999999999876 45667788888888899999999999999999999998754

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.97  E-value=1.7e-28  Score=169.19  Aligned_cols=148  Identities=34%  Similarity=0.531  Sum_probs=131.8

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .++.|...|.||++..+ .+.+.+++..+.+++||++|++++..++..+++++|++++|||++++++|..+..|+..+..
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~  100 (188)
T cd04125          21 TEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINR  100 (188)
T ss_pred             hcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            46778888999999665 67788888899999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      ... ...|++++|||.|+.+.+.++.+++..+++..+++++++||++|.|++++|+++++.+..+....+
T Consensus       101 ~~~-~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~~~~~  169 (188)
T cd04125         101 YAR-ENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRLEEQE  169 (188)
T ss_pred             hCC-CCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcCc
Confidence            653 458999999999998778888888899999999999999999999999999999999987654443

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.97  E-value=1.6e-28  Score=170.84  Aligned_cols=144  Identities=32%  Similarity=0.490  Sum_probs=129.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.++|||+||++++..++..++++++++++|||++++++|+.+..|+..+..
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~  106 (199)
T cd04110          27 ADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQ  106 (199)
T ss_pred             hcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            45678888999999655 67788889889999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..  ...|+++||||+|+.+...+..+++..+++..+++++++||++|.|++++|+++...+.....
T Consensus       107 ~~--~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         107 NC--DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             hC--CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            54  578999999999998877788888999999999999999999999999999999999987553

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.97  E-value=6e-29  Score=169.22  Aligned_cols=142  Identities=30%  Similarity=0.532  Sum_probs=126.1

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++++.|...|.||++..+...+.+++..+.+++|||+|+++|..+++.+++++|++++|||+++++||+.+. .|+..+.
T Consensus        18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~   97 (174)
T smart00174       18 YTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVK   97 (174)
T ss_pred             HHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            356788899999999888778888999999999999999999999999999999999999999999999986 6999887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...  +++|+++||||+|+...            ..++.+++..+++.++. ++++|||++|.|++++|+.+++.+++
T Consensus        98 ~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~~  173 (174)
T smart00174       98 HFC--PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAALN  173 (174)
T ss_pred             hhC--CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhcC
Confidence            754  57999999999998642            33778888999999996 89999999999999999999988754

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

>KOG0393|consensus

Probab=99.97  E-value=1e-29  Score=172.81  Aligned_cols=146  Identities=32%  Similarity=0.539  Sum_probs=134.4

Q ss_pred             CcccccccccccccccceEEEEEEEC-CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHH
Q psy11289          1 MKIESYFVTDYDPTIEDSYTKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQ   78 (159)
Q Consensus         1 ~~~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~   78 (159)
                      +|..+.|++.|.||+-+.|+..+.++ |+.+.+.+|||+|++.|..+++..+.++|++|+||++.+++||+++. .|+.+
T Consensus        23 ~~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pE  102 (198)
T KOG0393|consen   23 SYTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPE  102 (198)
T ss_pred             EeccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHH
Confidence            35678999999999999999999995 99999999999999999998888899999999999999999999987 89999


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +.+++  +++|+|+||+|.|+.+            ...++.+++..+|++.| ..|+||||++..|+.++|+..+..+..
T Consensus       103 i~~~c--p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~  180 (198)
T KOG0393|consen  103 IKHHC--PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALR  180 (198)
T ss_pred             HHhhC--CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhc
Confidence            99988  8999999999999963            25788999999999999 569999999999999999999999987


Q ss_pred             ccc
Q psy11289        146 HTK  148 (159)
Q Consensus       146 ~~~  148 (159)
                      ...
T Consensus       181 ~~~  183 (198)
T KOG0393|consen  181 PPQ  183 (198)
T ss_pred             ccc
Confidence            653

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.97  E-value=1.3e-28  Score=169.51  Aligned_cols=145  Identities=27%  Similarity=0.452  Sum_probs=126.7

Q ss_pred             ccccccccccccccceEEEEEEEC-CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      +++.|.+++.||++..+...+... +..+.+++|||+|++++..+++.+++++|++++|||+++++||+.+. .|+..+.
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~  100 (187)
T cd04132          21 SQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVN  100 (187)
T ss_pred             HhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            567888999999998876666665 78899999999999999999999999999999999999999999997 5888776


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc----CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ----RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~----~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ...  .+.|+++||||.|+...    +.++..++.+++..+++ +++++||++|.|++++|+.+++.+......
T Consensus       101 ~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~  172 (187)
T cd04132         101 HFC--PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEGK  172 (187)
T ss_pred             HhC--CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhhh
Confidence            653  57899999999998643    35678888999999998 899999999999999999999999877654

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=1.3e-28  Score=173.57  Aligned_cols=141  Identities=30%  Similarity=0.501  Sum_probs=123.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|...+.||+|..+ ...+..++..+++++||++|+++|..++..++++++++|+|||+++++||+.+..|+..+.
T Consensus        33 ~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~  112 (219)
T PLN03071         33 HLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLC  112 (219)
T ss_pred             HhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHH
Confidence            357789999999999554 6677778888999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +..  .++|+++||||+|+.. +.+..++. .+++..++++++|||++|.|++++|+++++.+.+.
T Consensus       113 ~~~--~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071        113 RVC--ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             HhC--CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            764  5799999999999864 44445454 77888889999999999999999999999998755

>cd04140 ARHI_like ARHI subfamily

Probab=99.96  E-value=2.8e-28  Score=164.80  Aligned_cols=140  Identities=35%  Similarity=0.583  Sum_probs=124.3

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+...+..++..+.+++||++|+++|..++..++++++++++|||++++++++.+..|+..+.+.
T Consensus        22 ~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~  101 (165)
T cd04140          22 VKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEI  101 (165)
T ss_pred             HhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            46788889999999888777788888899999999999999999999999999999999999999999999998887765


Q ss_pred             cC--CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         83 KD--RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..  ..++|+++|+||+|+.+.+.+..+++..++...++++++|||++|.|++++|++++..
T Consensus       102 ~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140         102 KGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             hcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHhc
Confidence            42  2578999999999997767787888888888889999999999999999999999863

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.96  E-value=6.1e-28  Score=163.62  Aligned_cols=142  Identities=51%  Similarity=0.863  Sum_probs=128.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .++.|.+++.||++..+.+.+.+++..+.+++||++|+++|..+++.++++++++++|||++++++++.+..|...+.+.
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~  101 (168)
T cd04177          22 VQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRI  101 (168)
T ss_pred             HhCCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46778889999999888888888999999999999999999999999999999999999999999999999999998876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....++|+++++||.|+.+.+.++.++...+++..+ ++++++||++|.|++++|++++.++.
T Consensus       102 ~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         102 KDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             hCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            555689999999999998778888888888888888 88999999999999999999998764

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

>PLN03110 Rab GTPase; Provisional

Probab=99.96  E-value=6.1e-28  Score=169.85  Aligned_cols=144  Identities=29%  Similarity=0.511  Sum_probs=129.9

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ .+.+.+++..+.++|||++|++++.+++..++++++++++|||++++++|+.+..|+..+..
T Consensus        33 ~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~  112 (216)
T PLN03110         33 TRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRD  112 (216)
T ss_pred             hcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHH
Confidence            45677778899999666 78888999999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++..++..++++++++||++|.|++++|++++..+.+..
T Consensus       113 ~~~-~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~  177 (216)
T PLN03110        113 HAD-SNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHII  177 (216)
T ss_pred             hCC-CCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            643 57899999999999887888888999999999999999999999999999999999887643

>cd04112 Rab26 Rab26 subfamily

Probab=99.96  E-value=8.8e-28  Score=166.11  Aligned_cols=144  Identities=28%  Similarity=0.557  Sum_probs=127.8

Q ss_pred             cccccc-ccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFV-TDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~-~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|. +.+.||++..+ ...+.+++..+.++||||||++++..++..+++++|++++|||++++++++++..|+..+.
T Consensus        21 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~  100 (191)
T cd04112          21 KDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDITNKASFDNIRAWLTEIK  100 (191)
T ss_pred             hcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            345664 47889998666 5678889999999999999999999999999999999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +... .++|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|+++.+.+....
T Consensus       101 ~~~~-~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112         101 EYAQ-EDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRK  166 (191)
T ss_pred             HhCC-CCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            7643 47899999999999777777888889999999999999999999999999999999998774

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.96  E-value=4.2e-28  Score=163.86  Aligned_cols=142  Identities=42%  Similarity=0.670  Sum_probs=124.6

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccc-hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.++|.||++..+...+.+++..+++++||+||++++ ......+++++|++++|||+++++||+.+..|+..+..
T Consensus        20 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~   99 (165)
T cd04146          20 LTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIRE   99 (165)
T ss_pred             HhCccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            46778889999998777777888999999999999999863 44577889999999999999999999999999988887


Q ss_pred             hcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCC-CCHHHHHHHHHHHHH
Q psy11289         82 VKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR-INVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~-~~i~~~~~~l~~~~~  144 (159)
                      ... ..++|+++||||+|+.+.+.++.+++..+++..+++++++||++| .|++++|+++++.+.
T Consensus       100 ~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         100 IKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             HhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            653 357999999999999877888888889999999999999999999 599999999998764

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.96  E-value=4.5e-28  Score=163.00  Aligned_cols=138  Identities=36%  Similarity=0.567  Sum_probs=123.6

Q ss_pred             ccccccccccccccceE-EEEEEEC--CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVID--DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~--~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      +.+.|.+.+.||++..+ ...+.++  +..+++++||+||++++..++..+++++|++++|||++++++++.+..|+..+
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~  100 (162)
T cd04106          21 VKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKV  100 (162)
T ss_pred             hcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            45678888999999665 6667776  78889999999999999999999999999999999999999999999999998


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .+..  .++|+++|+||.|+.....++.+++..+++.++++++++||++|.|++++|+++...
T Consensus       101 ~~~~--~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         101 EAEC--GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             HHhC--CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            7654  578999999999998777888888999999999999999999999999999998753

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.96  E-value=4.6e-28  Score=162.82  Aligned_cols=135  Identities=22%  Similarity=0.454  Sum_probs=115.8

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+.++|+ +..+...+.++|..+.+++||++|++.     ..+++++|++++|||+++++||+.+..|+..+..
T Consensus        20 ~~~~~f~~~~~~~-~~~~~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~   93 (158)
T cd04103          20 YLTGSYVQLESPE-GGRFKKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLENEASFQTVYNLYHQLSS   93 (158)
T ss_pred             HHhCCCCCCCCCC-ccceEEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            3567888888776 444567788999999999999999975     3567899999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCC--CcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .....+.|+++||||.|+.  ..+.++.+++.+++++. ++++++|||++|.||+++|+.+++.
T Consensus        94 ~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          94 YRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             hcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            7655678999999999985  35778888999999876 4899999999999999999999864

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.96  E-value=3.5e-28  Score=165.59  Aligned_cols=137  Identities=34%  Similarity=0.575  Sum_probs=121.7

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +++.|.++|.||+.+.+...+.+++..+++++||++|++++..+++.+++++|++++|||++++++|+.+. .|+..+..
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~  100 (173)
T cd04130          21 TTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRK  100 (173)
T ss_pred             HhCCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            46789999999998888778888999999999999999999999999999999999999999999999985 68888876


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ..  ++.|++++|||.|+..            .+.++.+++..+++..++ +++++||++|.|++++|+.++-
T Consensus       101 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         101 HN--PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             hC--CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            43  5689999999999853            457788889999999997 8999999999999999998864

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,

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.96  E-value=1.1e-27  Score=171.31  Aligned_cols=146  Identities=38%  Similarity=0.575  Sum_probs=126.9

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+.|.||+++.+.+.+.+++..+.++||||+|+++|..++..++.++|++|+|||+++++||+.+..|+..+..
T Consensus        20 ~~~~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~   99 (247)
T cd04143          20 FLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILE   99 (247)
T ss_pred             HHcCCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence            35688989999999988888889999999999999999999988888889999999999999999999999999999876


Q ss_pred             hc--------CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VK--------DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~--------~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..        ...++|+++|+||+|+...+.+..++..+++.. .+++++++||++|.|++++|++++..+....
T Consensus       100 ~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~~~p~  174 (247)
T cd04143         100 TKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLAKLPN  174 (247)
T ss_pred             hhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHhcccc
Confidence            42        224789999999999987677888888777764 4678999999999999999999998764333

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.96  E-value=2e-27  Score=161.10  Aligned_cols=142  Identities=29%  Similarity=0.502  Sum_probs=127.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||++|++++..+...+++++|++++|||+++++|++.+..|+..+.+
T Consensus        25 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~  104 (168)
T cd01866          25 TDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ  104 (168)
T ss_pred             HcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            45677888889988665 67788899888999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... ++.|+++|+||.|+.+.+.++.+++..++...+++++++||+++.|++++|.++++++.+
T Consensus       105 ~~~-~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         105 HSN-SNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             hCC-CCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            643 678999999999998777888889999999999999999999999999999999988754

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.96  E-value=1.2e-27  Score=162.30  Aligned_cols=139  Identities=37%  Similarity=0.566  Sum_probs=123.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ .+.+.+++..+.+++||++|++++..++..+++++|++++|||+++++|++.+..|...+..
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  105 (170)
T cd04116          26 VTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIY  105 (170)
T ss_pred             HcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence            46778888899998665 67888899999999999999999999999999999999999999999999999999998877


Q ss_pred             hcC---CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKD---RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...   ..++|+++|+||.|+. .+.++.+++.+++++++ .+++++||++|.|+.++|+++++.
T Consensus       106 ~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         106 YADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             hcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            553   2468999999999986 46677888999999888 479999999999999999999875

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

>cd01868 Rab11_like Rab11-like

Probab=99.96  E-value=2.3e-27  Score=160.16  Aligned_cols=140  Identities=32%  Similarity=0.534  Sum_probs=125.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ .+.+..++..+.+++||++|++++..+++.++++++++++|||+++++++.++..|+..+.+
T Consensus        24 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  103 (165)
T cd01868          24 TRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKQTFENVERWLKELRD  103 (165)
T ss_pred             hcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            34677888899999665 77888899889999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... .++|+++|+||.|+...+.+..++...++...+++++++||++|.|++++|++++..+
T Consensus       104 ~~~-~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         104 HAD-SNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             hCC-CCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            653 3689999999999987778888888999988899999999999999999999998765

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

>PLN03108 Rab family protein; Provisional

Probab=99.96  E-value=3.4e-27  Score=165.43  Aligned_cols=144  Identities=30%  Similarity=0.526  Sum_probs=129.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.+++||++|++++..++..+++++|++++|||+++++++..+..|+..+..
T Consensus        27 ~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~  106 (210)
T PLN03108         27 TDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQ  106 (210)
T ss_pred             HhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHH
Confidence            35678888999999666 67788899999999999999999999999999999999999999999999999999988876


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++.++++.++++++++||+++.|++++|+++++.+.+..
T Consensus       107 ~~~-~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~  171 (210)
T PLN03108        107 HAN-ANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKI  171 (210)
T ss_pred             hcC-CCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            543 57899999999999887888899999999999999999999999999999999999988654

>cd04126 Rab20 Rab20 subfamily

Probab=99.96  E-value=2.5e-27  Score=166.71  Aligned_cols=138  Identities=31%  Similarity=0.443  Sum_probs=117.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.. +.||++..+ ....    ..+.+.+||++|+++|..+++.+++++|++|+|||+++++||+.+..|+..+.+
T Consensus        21 ~~~~f~~-~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~   95 (220)
T cd04126          21 MERRFKD-TVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTD   95 (220)
T ss_pred             hcCCCCC-CCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            4566764 688988554 3222    457788999999999999999999999999999999999999999988888776


Q ss_pred             hcCCCCCcEEEEEeCCCCCC-------------------cCCCCHHHHHHHHHHcC--------------CcEEEeCCCC
Q psy11289         82 VKDRDEFPMLMVGNKADLDH-------------------QRQVSSMDAQNVARQLR--------------IPYIECSAKV  128 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~--------------~~~~~~sa~~  128 (159)
                      .. ..++|+++||||+|+.+                   .+.++.+++..+|++.+              ++|+||||++
T Consensus        96 ~~-~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~t  174 (220)
T cd04126          96 TA-NEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKT  174 (220)
T ss_pred             hc-CCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCC
Confidence            53 35789999999999965                   57888999999999876              6899999999


Q ss_pred             CCCHHHHHHHHHHHHHhc
Q psy11289        129 RINVDQAFHELVRIVLLH  146 (159)
Q Consensus       129 ~~~i~~~~~~l~~~~~~~  146 (159)
                      |.||+++|..+++.+...
T Consensus       175 g~~V~elf~~i~~~~~~~  192 (220)
T cd04126         175 GYNVDELFEYLFNLVLPL  192 (220)
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            999999999999887743

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.96  E-value=2.5e-27  Score=160.05  Aligned_cols=139  Identities=30%  Similarity=0.464  Sum_probs=123.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||.+..+ .+.+.+++..+.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+..
T Consensus        24 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~  103 (165)
T cd01864          24 KSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEK  103 (165)
T ss_pred             hhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHH
Confidence            35678888899998555 67788899889999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .. ..++|+++|+||+|+.+.+.+..+++..+++..+. .++++||++|.|++++|+++.+.
T Consensus       104 ~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         104 YG-ASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             hC-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            54 25789999999999987778888889999998886 58999999999999999999864

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.96  E-value=3.9e-27  Score=159.98  Aligned_cols=141  Identities=30%  Similarity=0.418  Sum_probs=126.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccch-HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFS-AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|...+.||++..+ .+.+.+++..+.+++||++|++++. .+++.+++++|++++|||+++++++..+..|+..+.
T Consensus        23 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  102 (170)
T cd04115          23 CAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECE  102 (170)
T ss_pred             HhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHH
Confidence            45678888999998655 6778889999999999999999886 578899999999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCC---CCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKV---RINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~~~~l~~~~  143 (159)
                      ......++|+++|+||+|+.+.+.++.+++.++++..+++++++||++   +.|++++|..+++.+
T Consensus       103 ~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         103 QHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             HhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            876556799999999999988888888899999999999999999999   899999999998765

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

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.96  E-value=3.6e-27  Score=159.67  Aligned_cols=139  Identities=29%  Similarity=0.504  Sum_probs=120.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+..++..+.+++|||+|++++..++..+++++|++|+|||+++++|+..+..|+..+.+
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  100 (166)
T cd00877          21 LTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVR  100 (166)
T ss_pred             HhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            45678888999998655 56667788889999999999999988889999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .++|+++||||+|+.+ +.+. .+..++++..+++++++||++|.|++++|+++++.+.+
T Consensus       101 ~~--~~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877         101 VC--GNIPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             hC--CCCcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            75  3799999999999873 3333 34456777778899999999999999999999998865

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.96  E-value=5.2e-27  Score=157.83  Aligned_cols=139  Identities=32%  Similarity=0.511  Sum_probs=125.0

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||.+..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+..
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  100 (161)
T cd04113          21 VENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARA  100 (161)
T ss_pred             HhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35677788889998665 67788889889999999999999999999999999999999999999999999999998876


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ... +++|+++++||.|+.+.+.++.+++..+++..+++++++||+++.|+.++|+++++.
T Consensus       101 ~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         101 LAS-PNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             hCC-CCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            643 678999999999998777888889999999999999999999999999999999875

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.96  E-value=9.3e-27  Score=161.08  Aligned_cols=143  Identities=28%  Similarity=0.479  Sum_probs=124.6

Q ss_pred             ccccccc-cccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVT-DYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~-~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|.. .|.||++..+ .+.+.+++..+.+++||++|++++..++..+++++|++++|||++++++++.+..|+..+.
T Consensus        21 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~  100 (193)
T cd04118          21 VHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQ  100 (193)
T ss_pred             HhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            4567764 7899999776 6788899999999999999999999999999999999999999999999999999999887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc----CCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ----RQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...  .+.|+++|+||+|+.+.    +.+..+++..++...+++++++||++|.|++++|+++.+.+.+..
T Consensus       101 ~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~  169 (193)
T cd04118         101 NLE--EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRA  169 (193)
T ss_pred             hcC--CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            753  47899999999998532    455667788888888999999999999999999999999887654

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.96  E-value=8.3e-27  Score=157.11  Aligned_cols=139  Identities=25%  Similarity=0.406  Sum_probs=119.6

Q ss_pred             ccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||.+.. +.+...+++..+.+++|||+|+++|..+++.+++++|++++|||++++.+++++..|+..+.+
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  100 (161)
T cd04124          21 LMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELRE  100 (161)
T ss_pred             HhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            4567888888888744 466777889999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..  ++.|+++|+||+|+...  . ..+...+++..+++++++||++|.|++++|+.+++.+.++
T Consensus       101 ~~--~~~p~ivv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         101 YR--PEIPCIVVANKIDLDPS--V-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             hC--CCCcEEEEEECccCchh--H-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            54  57899999999998432  1 3455677777889999999999999999999999988764

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.95  E-value=8.2e-27  Score=162.04  Aligned_cols=147  Identities=26%  Similarity=0.422  Sum_probs=121.4

Q ss_pred             ccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHH
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIY   73 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~   73 (159)
                      +.+.|...|.||++.. +...+.++|..+.+++|||+|..++..        .....++++|++++|||+++++||+.+.
T Consensus        21 ~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~  100 (198)
T cd04142          21 LAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVK  100 (198)
T ss_pred             HcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHH
Confidence            5678888999999855 466778899999999999999765421        1334478999999999999999999999


Q ss_pred             HHHHHHHhhcC--CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         74 KFHRQILRVKD--RDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        74 ~~~~~i~~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      .|+..+.+...  ..++|+++|+||+|+.+.+.++.++...++. ..++++++|||++|.|++++|+.++..+..+.+.
T Consensus       101 ~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~~~  179 (198)
T cd04142         101 LLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRGRS  179 (198)
T ss_pred             HHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhccCCC
Confidence            99998887642  3678999999999997767777777777754 5689999999999999999999999988866654

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.95  E-value=1.3e-26  Score=156.30  Aligned_cols=136  Identities=29%  Similarity=0.483  Sum_probs=120.4

Q ss_pred             cccccccccccceE-EEEEEEC-CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          6 YFVTDYDPTIEDSY-TKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         6 ~f~~~~~pt~~~~~-~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .|.++|.||++..+ ...+.++ +..+.+++||++|++++..+++.+++++|++++|||+++++++..+..|+..+....
T Consensus        26 ~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~  105 (164)
T cd04101          26 VFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS  105 (164)
T ss_pred             CcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC
Confidence            68899999998555 5666664 678999999999999999999999999999999999999999999999999988764


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                        .+.|+++|+||+|+.+...++..++..++...+++++++||++|.|++++|+.+++.+
T Consensus       106 --~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         106 --KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             --CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence              5689999999999977777777777778888889999999999999999999998865

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.95  E-value=9.2e-27  Score=158.46  Aligned_cols=140  Identities=26%  Similarity=0.479  Sum_probs=123.2

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++.+.|.+.+.||+++.+...+.+++..+.+++||++|+++|...++.+++++|++++|||++++++|+.+. .|+..+.
T Consensus        20 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~   99 (174)
T cd04135          20 YANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELK   99 (174)
T ss_pred             HHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            356788889999998888778888999999999999999999988999999999999999999999999986 6887776


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..  .++.|+++|+||+|+.+.            +.++.+++..+++.+++ ++++|||++|.|++++|+.++..+
T Consensus       100 ~~--~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         100 EY--APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             hh--CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            65  367999999999998542            36778889999999986 699999999999999999999876

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.95  E-value=4.2e-26  Score=153.57  Aligned_cols=140  Identities=31%  Similarity=0.536  Sum_probs=126.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|||+++++++..+..|+..+..
T Consensus        22 ~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  101 (163)
T cd01860          22 VKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQR  101 (163)
T ss_pred             HcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            45677777899999766 78888999999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... .+.|+++++||+|+......+.++...++...+++++++||++|.|+.++|+++++.+
T Consensus       102 ~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         102 NAS-PNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             hCC-CCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            654 6789999999999987677788888899999999999999999999999999999875

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.95  E-value=4.9e-26  Score=153.23  Aligned_cols=141  Identities=38%  Similarity=0.638  Sum_probs=125.7

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.+...+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++.+++.+..|+..+...
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~  101 (164)
T smart00175       22 DGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLKNWLKELREY  101 (164)
T ss_pred             cCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4566777888888665 677788898889999999999999999999999999999999999999999999999998877


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .. +++|+++++||+|+...+.+..+.+..+++..+++++++||++|.|++++|+++.+.+.+
T Consensus       102 ~~-~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      102 AD-PNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             CC-CCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            54 579999999999998767778888889999999999999999999999999999998754

Rab GTPases are implicated in vesicle trafficking.

>cd04148 RGK RGK subfamily

Probab=99.95  E-value=4.2e-26  Score=161.02  Aligned_cols=143  Identities=31%  Similarity=0.510  Sum_probs=123.0

Q ss_pred             cccccc-cccccccc-ceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhh-cCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          3 IESYFV-TDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMR-SGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         3 ~~~~f~-~~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~-~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      +.+.|. ..|.||.+ +.+.+.+.+++..+.+++||++|++.  .....+++ ++|++++|||++++.+|+.+..|+..+
T Consensus        21 ~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l   98 (221)
T cd04148          21 TSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQL   98 (221)
T ss_pred             hcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            456775 78888887 55678889999999999999999983  23455667 999999999999999999999999988


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .......++|+++|+||+|+.+.+.++.+++..++...+++++++||++|.|++++|++++.++....
T Consensus        99 ~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~~  166 (221)
T cd04148          99 RRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLRR  166 (221)
T ss_pred             HHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            87654467999999999999877888888888999988999999999999999999999999987433

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.95  E-value=8e-26  Score=152.10  Aligned_cols=143  Identities=56%  Similarity=0.881  Sum_probs=128.1

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++.|...+.||+++.+.+...+++..+.+++||++|++.+..++..+++.++++++|||++++.++..+..|+..+...
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  100 (164)
T cd04139          21 MYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRV  100 (164)
T ss_pred             HhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35678889999999888888888999999999999999999999999999999999999999999999999999998887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ....++|+++|+||+|+.+.......+...+++.++++++++||++|.|++++|+++.+++.+
T Consensus       101 ~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  163 (164)
T cd04139         101 KDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIRQ  163 (164)
T ss_pred             cCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            554679999999999997655666777888888899999999999999999999999988753

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.95  E-value=1.2e-26  Score=157.48  Aligned_cols=141  Identities=22%  Similarity=0.326  Sum_probs=120.2

Q ss_pred             ccccccc-ccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFV-TDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~-~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ++.+.|. ++|.||++..+ ...+.++|..+.+.+||++|++++..++..+++++|++++|||++++++++.+..|+..+
T Consensus        24 ~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~  103 (169)
T cd01892          24 FLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKY  103 (169)
T ss_pred             HhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHh
Confidence            3567888 89999999877 567788998889999999999999888999999999999999999999999998988765


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...   .++|+++|+||+|+.+.......+...+++.+++. ++++||++|.|++++|+.+.+.+..
T Consensus       104 ~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~~  167 (169)
T cd01892         104 FML---GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQY  167 (169)
T ss_pred             ccC---CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhhC
Confidence            331   46899999999999765554445567788888874 7999999999999999999998763

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.

>cd01861 Rab6 Rab6 subfamily

Probab=99.95  E-value=5.8e-26  Score=152.57  Aligned_cols=139  Identities=31%  Similarity=0.528  Sum_probs=123.1

Q ss_pred             ccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.|+++.. +...+.+++..+++++||+||++++..++..+++++|++++|||+++++++..+..|+..+..
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~  100 (161)
T cd01861          21 MYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRD  100 (161)
T ss_pred             HcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            3567777888998855 477888888889999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ... .+.|+++++||+|+.+....+.++...+++..+++++++||+++.|++++|+++.+.
T Consensus       101 ~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         101 ERG-NDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             hCC-CCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            543 368999999999997667778888889999889999999999999999999999864

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

>PLN03118 Rab family protein; Provisional

Probab=99.95  E-value=9.2e-26  Score=158.28  Aligned_cols=139  Identities=32%  Similarity=0.555  Sum_probs=121.1

Q ss_pred             ccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHH-HHHHHHhhcCCC
Q psy11289          9 TDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYK-FHRQILRVKDRD   86 (159)
Q Consensus         9 ~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~-~~~~i~~~~~~~   86 (159)
                      ..+.||++..+ ...+.+++..+.++||||||++++..++..+++++|++++|||++++++|+.+.. |...+.......
T Consensus        40 ~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~  119 (211)
T PLN03118         40 EDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQ  119 (211)
T ss_pred             CCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            56788988665 6777888888999999999999999999999999999999999999999999975 655555444335


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +.|+++|+||+|+...+.++.++...++..++++++++||++|.|++++|+++...+....
T Consensus       120 ~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        120 DCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP  180 (211)
T ss_pred             CCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            6899999999999877778888888999999999999999999999999999999887654

>cd01863 Rab18 Rab18 subfamily

Probab=99.95  E-value=1.2e-25  Score=151.04  Aligned_cols=139  Identities=33%  Similarity=0.546  Sum_probs=122.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|++.+..
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  100 (161)
T cd01863          21 TDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELET  100 (161)
T ss_pred             HcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHH
Confidence            35567777899999665 56677888889999999999999998999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .....+.|+++++||+|+.. .....++...+++..+++++++||++|.|++++++++++.
T Consensus       101 ~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         101 YSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             hCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            87667899999999999873 4556778889999999999999999999999999999875

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.94  E-value=1.1e-25  Score=153.29  Aligned_cols=140  Identities=28%  Similarity=0.489  Sum_probs=120.0

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~   80 (159)
                      ++.+.|.+.|.||+++.+...+.+++..+.+++|||+|+++|..++..+++++|++++|||++++++|+.+. .|+..+.
T Consensus        21 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~  100 (175)
T cd01870          21 FSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK  100 (175)
T ss_pred             HhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            346788889999999887777888999999999999999999888888899999999999999999999986 6888877


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +..  .+.|+++|+||+|+.+.            ..+...++..+++..+. ++++|||++|.|++++|+++++.+
T Consensus       101 ~~~--~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         101 HFC--PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             hhC--CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            653  57899999999998542            33556778888888875 799999999999999999998764

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.94  E-value=3.2e-25  Score=150.38  Aligned_cols=145  Identities=37%  Similarity=0.609  Sum_probs=125.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .++.|...+.||++..+ .+.+.+++..+.+++||+||++.+..++..+++++|++|++||++++++++.+..|...+..
T Consensus        21 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~  100 (172)
T cd01862          21 VNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLI  100 (172)
T ss_pred             hcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            45667778888988555 67788899999999999999999999999999999999999999999999999999888766


Q ss_pred             hcC---CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKD---RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...   ..++|+++|+||+|+..++..+.++...+++..+ ++++++||++|.|++++|+++++.+.+..
T Consensus       101 ~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~  170 (172)
T cd01862         101 QASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQE  170 (172)
T ss_pred             hcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            543   2378999999999998666677788888888887 78999999999999999999999888763

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-

>cd04123 Rab21 Rab21 subfamily

Probab=99.94  E-value=3.1e-25  Score=148.82  Aligned_cols=139  Identities=31%  Similarity=0.527  Sum_probs=122.5

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.+.+.+.||++..+ ...+.+++..+.+.+||++|++.+..+++.+++++|++++|||++++++++.+..|+..+...
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~  101 (162)
T cd04123          22 ENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQM  101 (162)
T ss_pred             hCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4566677778887554 667777888889999999999999999999999999999999999999999999999998877


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .. .++|+++++||+|+...+.+..++...+++..+++++++||+++.|++++++++.+.+
T Consensus       102 ~~-~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         102 RG-NNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             CC-CCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            64 3789999999999987777888888888988999999999999999999999998765

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.94  E-value=2.3e-25  Score=154.88  Aligned_cols=145  Identities=36%  Similarity=0.536  Sum_probs=122.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||++|+.+|..++..+++++|++++|||++++.+++.+..|+..+...
T Consensus        20 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~   99 (198)
T cd04147          20 LYDTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEV   99 (198)
T ss_pred             HhCCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            45678888899998766778888998899999999999999989999999999999999999999999999999998887


Q ss_pred             cCCCCCcEEEEEeCCCCCC-cCCCCHHHHHHHHH-HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDH-QRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ....++|+++|+||+|+.. .+.+..++..+.+. ..+++++++||++|.|++++|+++++.+....
T Consensus       100 ~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  166 (198)
T cd04147         100 KEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQANLPY  166 (198)
T ss_pred             cCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhhccc
Confidence            6556799999999999865 35555555554443 45678999999999999999999999876433

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=99.94  E-value=6.7e-25  Score=150.15  Aligned_cols=148  Identities=35%  Similarity=0.568  Sum_probs=130.7

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      ++.|...+.||++..+...+..++..+.+++||+||++++..++..++..++++++|||+++..+++.+..|+..+.+..
T Consensus        23 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~  102 (180)
T cd04137          23 EGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDML  102 (180)
T ss_pred             hCCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            56777889999988777888888888899999999999999999999999999999999999999999999999988865


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      ...+.|+++|+||+|+...+.+..++...+++.++++++++||+++.|+.++|+++.+.+.+......
T Consensus       103 ~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~~~~  170 (180)
T cd04137         103 GKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKVENPLD  170 (180)
T ss_pred             CCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhcCCCC
Confidence            55678999999999997767777777788888889999999999999999999999999887665443

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

>cd00876 Ras Ras family

Probab=99.94  E-value=6.5e-25  Score=147.01  Aligned_cols=139  Identities=56%  Similarity=0.916  Sum_probs=126.1

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|..++.||+++.+...+..++..+++++||+||++.+..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~  100 (160)
T cd00876          21 KGTFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVK  100 (160)
T ss_pred             hCCCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45688899999997778888888888999999999999999999999999999999999999999999999999988876


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .....|+++++||+|+.+.+.++.+++..++..++++++++||+++.|++++|+++++.
T Consensus       101 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         101 DDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            54579999999999998777788888999999989999999999999999999999875

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=99.94  E-value=2.2e-25  Score=152.93  Aligned_cols=134  Identities=16%  Similarity=0.242  Sum_probs=104.3

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. ++.||++..+. .+  +...+.+++||+||++++..+|..+++++|++|+|||+++++++..+..|+..+....
T Consensus        39 ~~~~~-~~~pt~g~~~~-~~--~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~  114 (181)
T PLN00223         39 LGEIV-TTIPTIGFNVE-TV--EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNED  114 (181)
T ss_pred             cCCCc-cccCCcceeEE-EE--EECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCH
Confidence            45565 57899886543 23  3345678889999999999999999999999999999999999999888887776543


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC--------cEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI--------PYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...++|+++++||+|+.+.  .+.+   ++.+.+++        .++++||++|.|+.++|+++.+.+..+
T Consensus       115 ~~~~~piilv~NK~Dl~~~--~~~~---~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        115 ELRDAVLLVFANKQDLPNA--MNAA---EITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             hhCCCCEEEEEECCCCCCC--CCHH---HHHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHhhc
Confidence            3357899999999998653  3333   33444443        356899999999999999999887653

>cd04129 Rho2 Rho2 subfamily

Probab=99.94  E-value=5.9e-25  Score=151.50  Aligned_cols=144  Identities=33%  Similarity=0.550  Sum_probs=123.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~~   82 (159)
                      .+.|.+.+.||+++.+...+.+++..+.+.+||++|++.+....+.+++++++++++||++++++++.+. .|+..+.+.
T Consensus        23 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~  102 (187)
T cd04129          23 LGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRY  102 (187)
T ss_pred             hCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh
Confidence            5678888899988887777788888889999999999988777777889999999999999999999997 699888765


Q ss_pred             cCCCCCcEEEEEeCCCCCC----------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         83 KDRDEFPMLMVGNKADLDH----------QRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      .  +++|+++||||+|+.+          .+.++.+++..+++..+. ++++|||++|.|++++|+++.+.+....+.
T Consensus       103 ~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~  178 (187)
T cd04129         103 C--PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALLVRKS  178 (187)
T ss_pred             C--CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhcccCc
Confidence            4  5699999999999843          345667788899999985 799999999999999999999888765543

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=99.93  E-value=8.2e-26  Score=152.75  Aligned_cols=134  Identities=19%  Similarity=0.297  Sum_probs=108.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++.|.+++.||++..+   ..+++..+++++||++|++++..++..+++++|++++|||.+++.++..+..|+..+...
T Consensus        20 ~~~~~~~~~~pt~g~~~---~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~   96 (164)
T cd04162          20 SSERSLESVVPTTGFNS---VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQH   96 (164)
T ss_pred             hcCCCcccccccCCcce---EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhC
Confidence            45678888999998543   234556678889999999999999999999999999999999999999999998888654


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCH----HHHHHHHHHcCCcEEEeCCCC------CCCHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSS----MDAQNVARQLRIPYIECSAKV------RINVDQAFHELVR  141 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~sa~~------~~~i~~~~~~l~~  141 (159)
                      .  .++|+++|+||.|+...+.++.    .++..++++.+++++++||++      +.|+.++|+.++.
T Consensus        97 ~--~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162          97 P--PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             C--CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHhc
Confidence            3  6799999999999876554321    123455666678899988888      9999999998874

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.

>cd04114 Rab30 Rab30 subfamily

Probab=99.93  E-value=3.3e-24  Score=145.17  Aligned_cols=139  Identities=30%  Similarity=0.472  Sum_probs=121.1

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.+.+.+.||++..+ ...+.+++..+.+.+||++|++.+...+..+++.+|++++|||++++++++.+..|+..+...
T Consensus        29 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~  108 (169)
T cd04114          29 QGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQY  108 (169)
T ss_pred             hCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            4567777888888444 677888998889999999999999998899999999999999999999999999999888766


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .. .+.|+++|+||+|+.+.+.+..+....+.+....+++++||++|.|+.++|+++...+
T Consensus       109 ~~-~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         109 AN-NKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             CC-CCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            43 4689999999999987777777777888887788899999999999999999998764

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.93  E-value=5e-25  Score=149.47  Aligned_cols=132  Identities=16%  Similarity=0.210  Sum_probs=103.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++..+. .+.  ...+++++||++|++++..+++.+++++|++++|||++++.++.++..|+..+....
T Consensus        31 ~~~~~-~~~~t~g~~~~-~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~  106 (168)
T cd04149          31 LGQSV-TTIPTVGFNVE-TVT--YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDR  106 (168)
T ss_pred             cCCCc-cccCCcccceE-EEE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCH
Confidence            34554 46889886553 222  345778889999999999999999999999999999999999999988887776543


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-----cCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-----LRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ...++|+++|+||+|+.+  .++.+++..+++.     .+++++++||++|.|++++|++|.+
T Consensus       107 ~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         107 EMRDALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             hhcCCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            335689999999999864  3456666665421     2246899999999999999999865

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.93  E-value=1.1e-24  Score=147.92  Aligned_cols=137  Identities=16%  Similarity=0.242  Sum_probs=108.9

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      ++.|. .+.||++..+. .+..  ..+.+++||+||++++..++..+++++|++++|||+++++++.++..|+..+.+..
T Consensus        21 ~~~~~-~~~~T~~~~~~-~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~   96 (169)
T cd04158          21 QDEFM-QPIPTIGFNVE-TVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEK   96 (169)
T ss_pred             cCCCC-CcCCcCceeEE-EEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCh
Confidence            34454 47899886653 2333  45667889999999999999999999999999999999999999999998887654


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC------CcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR------IPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...+.|+++++||+|+.+  .++.++...++...+      +.+++|||++|.|+.++|+++++.+...
T Consensus        97 ~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158          97 ELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             hhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            335689999999999864  356677766654322      2578999999999999999999877654

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.93  E-value=2.4e-24  Score=147.99  Aligned_cols=148  Identities=20%  Similarity=0.304  Sum_probs=115.5

Q ss_pred             cccccccccccccceE-EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .+.|.+. .||++..+ ...+.+ ++..+.+++|||+|++++..+++.+++++|++++|||+++++++..+..|+..+..
T Consensus        25 ~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~  103 (183)
T cd04152          25 FNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITR  103 (183)
T ss_pred             cCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHh
Confidence            4456544 68887444 444554 45678899999999999999999999999999999999999999999989888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH--c----CCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCCCc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ--L----RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNST  154 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~  154 (159)
                      .....++|+++|+||+|+.+  .++.++...++..  .    +++++++||++|.|++++|+++.+.+.+.++..+..+
T Consensus       104 ~~~~~~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~~~~~~~~  180 (183)
T cd04152         104 FSENQGVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRRKMLRQQK  180 (183)
T ss_pred             hhhcCCCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHHhhhhhhh
Confidence            65546789999999999864  2334444444321  1    2468999999999999999999999987776655444

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.93  E-value=2.7e-25  Score=149.51  Aligned_cols=132  Identities=17%  Similarity=0.219  Sum_probs=100.7

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++..+. .+..  ..+.+++||++|++++..++..+++++|++++|||++++.+++.+..|+..+....
T Consensus        22 ~~~~~-~~~pt~g~~~~-~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~   97 (159)
T cd04150          22 LGEIV-TTIPTIGFNVE-TVEY--KNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNED   97 (159)
T ss_pred             cCCCc-ccCCCCCcceE-EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcH
Confidence            56676 47899986553 2333  45778889999999999999999999999999999999999999998888776543


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ...+.|+++++||+|+.+.  ...++......     ..++.++++||++|.|++++|++|.+
T Consensus        98 ~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150          98 ELRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             HhcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            3346899999999998642  22333222211     11345789999999999999999864

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=99.92  E-value=5.4e-25  Score=150.25  Aligned_cols=134  Identities=16%  Similarity=0.186  Sum_probs=102.2

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. ++.||++..+. .+..  ..+.+++||+||++++..++..+++++|++|+|||++++++++.+..|+..+.+..
T Consensus        35 ~~~~~-~~~~t~~~~~~-~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~  110 (175)
T smart00177       35 LGESV-TTIPTIGFNVE-TVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNED  110 (175)
T ss_pred             cCCCC-CcCCccccceE-EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCH
Confidence            45664 57899986653 2333  34678889999999999999999999999999999999999999998888876543


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ...++|+++|+||+|+.+..  +.++......     ...+.++++||++|.|++++|+||...+
T Consensus       111 ~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      111 ELRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             hhcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            33568999999999986432  2333222221     1123477899999999999999998764

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).

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.92  E-value=4.1e-24  Score=148.59  Aligned_cols=129  Identities=19%  Similarity=0.231  Sum_probs=107.9

Q ss_pred             cccccccccccccccceE-EEEEEEC-----CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVID-----DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~-----~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      ++.+.|.+++.||++..+ .+.+.++     ++.+.++|||++|+++|..++..+++++|++|+|||+++++||+++..|
T Consensus        20 ~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W   99 (202)
T cd04102          20 ICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRW   99 (202)
T ss_pred             HHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHH
Confidence            457789999999999655 5666663     5789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhc------------------CCCCCcEEEEEeCCCCCCcCCCCHHH----HHHHHHHcCCcEEEeCCCCCC
Q psy11289         76 HRQILRVK------------------DRDEFPMLMVGNKADLDHQRQVSSMD----AQNVARQLRIPYIECSAKVRI  130 (159)
Q Consensus        76 ~~~i~~~~------------------~~~~~p~ivv~nK~D~~~~~~~~~~~----~~~~~~~~~~~~~~~sa~~~~  130 (159)
                      +..+.+..                  ...++|+++||||.|+.+++.++...    ...+|++.|++.++.+++++.
T Consensus       100 ~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~  176 (202)
T cd04102         100 SLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGR  176 (202)
T ss_pred             HHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence            99997742                  12468999999999997766665543    346788999999999888654

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.92  E-value=7.1e-24  Score=145.58  Aligned_cols=137  Identities=18%  Similarity=0.236  Sum_probs=103.2

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|.. +.||++..+. .+..  ..+.+++||++|++++..++..+++++|++|+|||+++++++..+..++..+....
T Consensus        39 ~~~~~~-~~~T~~~~~~-~~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~  114 (182)
T PTZ00133         39 LGEVVT-TIPTIGFNVE-TVEY--KNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSED  114 (182)
T ss_pred             cCCccc-cCCccccceE-EEEE--CCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCH
Confidence            456654 7789886553 2333  45678889999999999999999999999999999999999999988887775543


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...++|+++|+||.|+.+.  .+.++......     ...+.++++||++|.|++++|+++.+.+.+.
T Consensus       115 ~~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        115 ELRDAVLLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKS  180 (182)
T ss_pred             hhcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHh
Confidence            3356899999999998642  23333222111     1123467999999999999999999887654

>cd00157 Rho Rho (Ras homology) family

Probab=99.92  E-value=1.6e-23  Score=141.96  Aligned_cols=137  Identities=31%  Similarity=0.568  Sum_probs=116.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|...+.||+.+.+...+..++..+.+++||+||++++......+++.+|++++|||++++.++..+. .|+..+..
T Consensus        21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  100 (171)
T cd00157          21 TTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRH  100 (171)
T ss_pred             HhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            34566677889988877777788899999999999999988877888889999999999999999998876 57777776


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcC-----------CCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQR-----------QVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ..  .+.|+++|+||+|+.+..           .+..+++..++..+++ +++++||++|.|+.++|+++++
T Consensus       101 ~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         101 YC--PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             hC--CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            54  479999999999986544           3457788888888887 8999999999999999999875

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

>cd00154 Rab Rab family

Probab=99.92  E-value=4.7e-23  Score=137.32  Aligned_cols=136  Identities=37%  Similarity=0.631  Sum_probs=119.6

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.+...+.||.+..+ ...+..++..+.+.+||+||+..+.+.+..+++++|++++|+|+++++++..+..|+..+...
T Consensus        22 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~  101 (159)
T cd00154          22 DGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITNRESFENLDKWLKELKEY  101 (159)
T ss_pred             hCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4566666788888655 677788888888999999999999999999999999999999999999999999999988886


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      .. .+.|+++++||+|+........++...++...+++++++||+++.|++++|+++.
T Consensus       102 ~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         102 AP-ENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             CC-CCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            53 4689999999999975567778888999998899999999999999999999986

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

>KOG4252|consensus

Probab=99.91  E-value=8e-26  Score=149.63  Aligned_cols=146  Identities=31%  Similarity=0.432  Sum_probs=136.5

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ||.|.|.++|.-|||..| ...+.++++-+.+.+||++|++.|......|+++|.+.++||+-+|..||+....|.+.+.
T Consensus        40 yCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~  119 (246)
T KOG4252|consen   40 YCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQ  119 (246)
T ss_pred             HhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHH
Confidence            688999999999999777 7888999888888999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ...  ..+|.++|-||+|+.+...+...++..+++.+.+.++.+|++...|+.++|..+++.+.+...+
T Consensus       120 ~e~--~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  120 KET--ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             HHh--ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            876  6799999999999999999999999999999999999999999999999999999888766544

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.91  E-value=1.7e-22  Score=142.10  Aligned_cols=140  Identities=30%  Similarity=0.522  Sum_probs=120.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.|.||++..+ ...+..+++.+.+++||++|++++..++..++++++++++|||+++..++..+..|+..+..
T Consensus        30 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~  109 (215)
T PTZ00132         30 LTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVR  109 (215)
T ss_pred             HhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            46778899999999665 66667788899999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..  .+.|+++++||+|+.+ +.+.. +...+++..++.++++||++|.|++++|.++++.+...
T Consensus       110 ~~--~~~~i~lv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~  170 (215)
T PTZ00132        110 VC--ENIPIVLVGNKVDVKD-RQVKA-RQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTND  170 (215)
T ss_pred             hC--CCCCEEEEEECccCcc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence            64  5789999999999864 33333 33467777889999999999999999999999988754

>cd01893 Miro1 Miro1 subfamily

Probab=99.91  E-value=8.1e-23  Score=138.25  Aligned_cols=140  Identities=25%  Similarity=0.323  Sum_probs=108.4

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      ..+.|.+.++++ ...+.....+++..+.+++||++|.+.+...+..+++++|++++|||++++++++.+. .|+..+..
T Consensus        21 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~   99 (166)
T cd01893          21 VSEEFPENVPRV-LPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRR   99 (166)
T ss_pred             HhCcCCccCCCc-ccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            456777665544 4444555567788899999999999988777888889999999999999999999986 68777766


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .+.|+++|+||+|+.+.....  .++...++..++  .++++|||++|.|++++|+.+...+.+
T Consensus       100 ~~--~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         100 LG--VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             hC--CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            54  478999999999997644321  233334444443  379999999999999999999988754

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.

>cd04154 Arl2 Arl2 subfamily

Probab=99.91  E-value=5.2e-23  Score=140.05  Aligned_cols=130  Identities=20%  Similarity=0.275  Sum_probs=102.8

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD   86 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~   86 (159)
                      +...+.||++.. ...+.+++  +.+++||+||++++..++..+++++|++++|||++++.++..+..|+..+.......
T Consensus        38 ~~~~~~~t~g~~-~~~~~~~~--~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~  114 (173)
T cd04154          38 DIDTISPTLGFQ-IKTLEYEG--YKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLA  114 (173)
T ss_pred             CCCCcCCccccc-eEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhc
Confidence            445678888833 34445554  567789999999999999999999999999999999999999988888876543346


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ++|+++|+||+|+.+..  ..++...+.+     ..+++++++||++|.|++++|++++.
T Consensus       115 ~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         115 GATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             CCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            78999999999986533  3445555443     23568999999999999999999864

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.90  E-value=5.6e-23  Score=139.28  Aligned_cols=132  Identities=18%  Similarity=0.305  Sum_probs=103.8

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +.|...+.||++.. ...+..+  .+.+++||+||++++..++..+++++|++++|||++++.++..+..|+..+.+...
T Consensus        21 ~~~~~~~~~t~g~~-~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~   97 (167)
T cd04161          21 GEIPKKVAPTVGFT-PTKLRLD--KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPR   97 (167)
T ss_pred             CCCCccccCcccce-EEEEEEC--CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCcc
Confidence            34778899999855 3344444  45677899999999999999999999999999999999999999999998877654


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHH------HHHHHHcC--CcEEEeCCCCC------CCHHHHHHHHHH
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDA------QNVARQLR--IPYIECSAKVR------INVDQAFHELVR  141 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~------~~~~~~~~--~~~~~~sa~~~------~~i~~~~~~l~~  141 (159)
                      ..++|+++|+||+|+.+...  ..+.      ..+++..+  +.+++|||++|      .|+.+.|+||..
T Consensus        98 ~~~~piliv~NK~Dl~~~~~--~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161          98 VSGKPILVLANKQDKKNALL--GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             ccCCcEEEEEeCCCCcCCCC--HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            45789999999999875442  2222      12232233  45788999998      899999999974

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.89  E-value=3.1e-22  Score=134.44  Aligned_cols=131  Identities=17%  Similarity=0.216  Sum_probs=99.3

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC--
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD--   84 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--   84 (159)
                      +.+.+.||++..+. .+.  ...+.+++||+||++++..++..+++++|++++|+|++++.++..+..|+..+.+...  
T Consensus        25 ~~~~~~~t~g~~~~-~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~  101 (162)
T cd04157          25 QSQIIVPTVGFNVE-SFE--KGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIK  101 (162)
T ss_pred             CcceecCccccceE-EEE--ECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccc
Confidence            46778899985432 222  3356677899999999999999999999999999999999999998888888766432  


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..++|+++|+||+|+.+..  ..++......     ...++++++||++|.|++++|+++.++
T Consensus       102 ~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~~  162 (162)
T cd04157         102 HRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQAQ  162 (162)
T ss_pred             cCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhcC
Confidence            2478999999999986432  2222222211     112458999999999999999998753

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

>cd04151 Arl1 Arl1 subfamily

Probab=99.89  E-value=1.4e-22  Score=136.03  Aligned_cols=131  Identities=18%  Similarity=0.209  Sum_probs=96.2

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +.+. .+.||++..+. .+.  +..+++++||+||++++..++..+++++|++++|+|++++.++.....|+..+.+...
T Consensus        22 ~~~~-~~~~t~~~~~~-~~~--~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~   97 (158)
T cd04151          22 GEVV-TTIPTIGFNVE-TVT--YKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEE   97 (158)
T ss_pred             CCCc-CcCCccCcCeE-EEE--ECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchh
Confidence            3443 45788875542 223  3456778899999999999999999999999999999999988877776666554333


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHH-HH----HHcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQN-VA----RQLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~----~~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ..+.|+++|+||+|+.+..  ...+... +.    ...+.+++++||++|.|++++|+++++
T Consensus        98 ~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151          98 LKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             hcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            3578999999999986432  2222211 11    112346999999999999999999874

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.89  E-value=5.7e-22  Score=144.79  Aligned_cols=118  Identities=15%  Similarity=0.254  Sum_probs=99.7

Q ss_pred             cccccccccccccccceE-EEEEEEC-------------CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVID-------------DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN   67 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~-------------~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~   67 (159)
                      ++.+.|...+.||+|..+ .+.+.++             ++.+.++||||+|+++|..++..++++++++|+|||+++++
T Consensus        41 f~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~AdgiILVyDITdr~  120 (334)
T PLN00023         41 IVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRR  120 (334)
T ss_pred             HhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCEEEEEEeCCCHH
Confidence            356788899999999665 6667764             35788999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcC-----------CCCCcEEEEEeCCCCCCcC---C---CCHHHHHHHHHHcCC
Q psy11289         68 SFEEIYKFHRQILRVKD-----------RDEFPMLMVGNKADLDHQR---Q---VSSMDAQNVARQLRI  119 (159)
Q Consensus        68 s~~~~~~~~~~i~~~~~-----------~~~~p~ivv~nK~D~~~~~---~---~~~~~~~~~~~~~~~  119 (159)
                      +|+++..|++.+.....           ..++|++|||||+|+...+   .   +..++++++|++.|+
T Consensus       121 SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        121 TKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             HHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHHHcCC
Confidence            99999999999987632           1258999999999996543   2   357899999999884

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.89  E-value=1.5e-21  Score=133.01  Aligned_cols=132  Identities=20%  Similarity=0.277  Sum_probs=100.9

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|.. +.||++..+. .+..+  .+++.+||+||++++...+..+++++|++++|||+++++++..+..|+..+.+..
T Consensus        37 ~~~~~~-~~~t~~~~~~-~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~  112 (174)
T cd04153          37 LGEVVH-TSPTIGSNVE-EIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHE  112 (174)
T ss_pred             cCCCCC-cCCccccceE-EEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhch
Confidence            455654 6788886652 33444  4567779999999999999999999999999999999999998888887776654


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHH-HHHH----HHcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDA-QNVA----RQLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~----~~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ...++|+++++||+|+.+  ..+.++. ..+.    +..+++++++||++|.|++++|++|.+
T Consensus       113 ~~~~~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         113 DLRKAVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             hhcCCCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            445789999999999865  2233332 2221    223467899999999999999999864

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.89  E-value=1.4e-21  Score=132.01  Aligned_cols=130  Identities=25%  Similarity=0.349  Sum_probs=102.4

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD   86 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~   86 (159)
                      +...+.||++..+. .+.+++  ..+++||+||++.+..++..+++++|++++|+|+++++++..+..|+..+.+.....
T Consensus        30 ~~~~~~~t~~~~~~-~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~  106 (167)
T cd04160          30 PPSKITPTVGLNIG-TIEVGN--ARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALE  106 (167)
T ss_pred             cccccCCccccceE-EEEECC--EEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhc
Confidence            34566788876652 344554  456679999999999999999999999999999999999999988888887754446


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-------cCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQ-------LRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ++|+++++||+|+...  .+.++...+.+.       .+++++++||++|.|+++++++|.+
T Consensus       107 ~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         107 GVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             CCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            7999999999998653  334444444332       2457999999999999999999875

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.88  E-value=7.2e-22  Score=132.55  Aligned_cols=133  Identities=21%  Similarity=0.331  Sum_probs=100.4

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      ++.|.. +.||++..+ ..+.. +..+.+++||++|++++...+..+++++|++++|+|++++.++..+..|+..+.+..
T Consensus        21 ~~~~~~-~~~t~~~~~-~~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~   97 (160)
T cd04156          21 HAELVT-TIPTVGFNV-EMLQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNE   97 (160)
T ss_pred             cCCccc-ccCccCcce-EEEEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhch
Confidence            445543 468877543 23333 345778889999999999999999999999999999999999999998888887654


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHH------HHHcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNV------ARQLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ...+.|+++|+||+|+.+.  .+.++....      +...++++++|||++|.|++++|+++.+
T Consensus        98 ~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156          98 HIKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             hhcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            4357899999999998642  223333222      1123456899999999999999999864

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

>KOG0070|consensus

Probab=99.88  E-value=1.5e-21  Score=130.17  Aligned_cols=130  Identities=19%  Similarity=0.252  Sum_probs=106.2

Q ss_pred             cccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE
Q psy11289         12 DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML   91 (159)
Q Consensus        12 ~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i   91 (159)
                      .||+|...+ .+++.  ++++.+||++|+++++++|+.|+++.+++|||+|.+|++.+.+++.-+..+....+..+.|++
T Consensus        46 vPTiGfnVE-~v~yk--n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~ll  122 (181)
T KOG0070|consen   46 VPTIGFNVE-TVEYK--NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLL  122 (181)
T ss_pred             CCcccccee-EEEEc--ceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEE
Confidence            899997753 22333  566777999999999999999999999999999999999999999888888888776789999


Q ss_pred             EEEeCCCCCCcCCCCHHHHHHHHHHc-----CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         92 MVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        92 vv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +.+||.|+++  ..+..+..+.....     ...+..|||.+|+|+.+.++|+...+...
T Consensus       123 v~aNKqD~~~--als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  123 VFANKQDLPG--ALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             EEechhhccc--cCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHhcc
Confidence            9999999874  44445544443322     24478899999999999999999987543

>cd00879 Sar1 Sar1 subfamily

Probab=99.87  E-value=5.3e-21  Score=131.91  Aligned_cols=129  Identities=22%  Similarity=0.381  Sum_probs=103.2

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ..+.||.+.. ...+.+++.  .+++||+||++++...+..++++++++++|+|+++++++.....|+..+.+.....+.
T Consensus        45 ~~~~~T~~~~-~~~i~~~~~--~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~  121 (190)
T cd00879          45 AQHVPTLHPT-SEELTIGNI--KFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANV  121 (190)
T ss_pred             cccCCccCcc-eEEEEECCE--EEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCC
Confidence            3577787754 344566664  5667999999999889999999999999999999999999888888888765544678


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHHH----------------cCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVARQ----------------LRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+++++||+|+.+  .+..++..++...                ..+++++|||++|.|++++|+++.+.
T Consensus       122 pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         122 PFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             CEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            9999999999863  4556666665542                12458999999999999999999864

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.

>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=99.87  E-value=5.7e-21  Score=130.37  Aligned_cols=129  Identities=23%  Similarity=0.396  Sum_probs=104.3

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP   89 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p   89 (159)
                      .+.||+|... ..+..++..  +.+||++|+..+++.|+.|++++|++|||+|.++++.+.+....+..+.......++|
T Consensus        41 ~~~pT~g~~~-~~i~~~~~~--~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~p  117 (175)
T PF00025_consen   41 ETIPTIGFNI-EEIKYKGYS--LTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIP  117 (175)
T ss_dssp             EEEEESSEEE-EEEEETTEE--EEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSE
T ss_pred             ccCccccccc-ceeeeCcEE--EEEEeccccccccccceeeccccceeEEEEecccceeecccccchhhhcchhhcccce
Confidence            4788888654 334556655  5669999999999999999999999999999999999999998888887765556899


Q ss_pred             EEEEEeCCCCCCcCCCCHHHHHHHHHH------cCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         90 MLMVGNKADLDHQRQVSSMDAQNVARQ------LRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        90 ~ivv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +++++||+|+++  ..+.++.......      ..+.++.|||.+|+|+.+.++||.+++
T Consensus       118 iLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  118 ILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             EEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             EEEEeccccccC--cchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            999999999764  4555555544322      234589999999999999999999875

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 ....

>KOG0075|consensus

Probab=99.87  E-value=5.7e-21  Score=122.75  Aligned_cols=133  Identities=21%  Similarity=0.345  Sum_probs=108.9

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .|.|.++..||.|....   +++...+++.+||+||+.+|+++|+.|.++++++++|+|+.|++.+.....-++.++...
T Consensus        42 ~g~~~edmiptvGfnmr---k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~  118 (186)
T KOG0075|consen   42 RGQYLEDMIPTVGFNMR---KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKP  118 (186)
T ss_pred             eccchhhhcccccceeE---EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcch
Confidence            35778888999997754   345556666679999999999999999999999999999999999888887777887777


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--------CcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--------IPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ...++|++++|||.|+++  +++..   .+...+|        +.+|.+|++...|++.+.+|++++..
T Consensus       119 ~l~gip~LVLGnK~d~~~--AL~~~---~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~hsk  182 (186)
T KOG0075|consen  119 SLTGIPLLVLGNKIDLPG--ALSKI---ALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIEHSK  182 (186)
T ss_pred             hhcCCcEEEecccccCcc--cccHH---HHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHHHhh
Confidence            778999999999999864  33333   2333333        56899999999999999999998754

>KOG0073|consensus

Probab=99.86  E-value=6.6e-20  Score=119.78  Aligned_cols=135  Identities=21%  Similarity=0.296  Sum_probs=106.3

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD   86 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~   86 (159)
                      -++...||.|.. .+....++  +++++||++|+...++.|+.|+..+||+|+|+|.+|+..+++....+..++......
T Consensus        40 ~~~~i~pt~gf~-Iktl~~~~--~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerla  116 (185)
T KOG0073|consen   40 DTDTISPTLGFQ-IKTLEYKG--YTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLA  116 (185)
T ss_pred             CccccCCcccee-eEEEEecc--eEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhc
Confidence            344556666544 33334444  456779999999999999999999999999999999999999887777777765566


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHH------HHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDA------QNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~------~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +.|+++++||.|++.  .++.++.      ..+++...++++.|||.+|+++.+.++|++..++++
T Consensus       117 G~~~Lvlank~dl~~--~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  117 GAPLLVLANKQDLPG--ALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             CCceEEEEecCcCcc--ccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence            889999999999873  2222222      334456678999999999999999999999999874

>KOG3883|consensus

Probab=99.85  E-value=2.9e-20  Score=120.33  Aligned_cols=153  Identities=25%  Similarity=0.326  Sum_probs=128.8

Q ss_pred             cccccccccccccccceEEEEEEE-CCeeEEEEEEeCCCcccc-hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~-~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      |.+......+.||+.+.|...+.- .|-.-.+.|+||.|...+ ..+-..|+.-+|++++|||..|++||+.+..+-..|
T Consensus        31 yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~~d~eSf~rv~llKk~I  110 (198)
T KOG3883|consen   31 YGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSPMDPESFQRVELLKKEI  110 (198)
T ss_pred             hccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEecCCCHHHHHHHHHHHHHH
Confidence            344555677899999998655554 455567888999999887 557788999999999999999999999887666667


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCCCc
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNST  154 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~~  154 (159)
                      .+..+...+|++++|||+|+.+++.+..+-+..||+...++.+++++.+...+-+.|..+...+.+.+.+..-+.
T Consensus       111 dk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~pqskS~Fpl  185 (198)
T KOG3883|consen  111 DKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQPQSKSTFPL  185 (198)
T ss_pred             hhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHHhccCCcccccCcc
Confidence            776666789999999999999999999999999999999999999999999999999999998887776554443

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.85  E-value=2.5e-20  Score=124.85  Aligned_cols=129  Identities=22%  Similarity=0.314  Sum_probs=100.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      ...+.||++..+ ..+.++  .+.+++||+||++++...+..+++++|++++|||+++++++..+..|+..+.......+
T Consensus        24 ~~~~~~t~~~~~-~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~  100 (158)
T cd00878          24 VVTTIPTIGFNV-ETVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKG  100 (158)
T ss_pred             CCCCCCCcCcce-EEEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCC
Confidence            345677777443 223344  45677799999999999999999999999999999999999999988888877554468


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHHH-----cCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVARQ-----LRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      .|+++++||+|+....  +.++..+....     ..++++++||++|.|++++|++|..
T Consensus       101 ~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         101 VPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             CcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            8999999999987533  23333333221     2357999999999999999999875

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

>cd01890 LepA LepA subfamily

Probab=99.85  E-value=9.2e-20  Score=124.46  Aligned_cols=111  Identities=23%  Similarity=0.316  Sum_probs=89.3

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++..+.+++|||||++++...+..+++++|++|+|||+++..++.....|.... .    .++|+++|+||+|+.+..  
T Consensus        63 ~~~~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~-~----~~~~iiiv~NK~Dl~~~~--  135 (179)
T cd01890          63 DGQEYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL-E----NNLEIIPVINKIDLPSAD--  135 (179)
T ss_pred             CCCcEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH-H----cCCCEEEEEECCCCCcCC--
Confidence            667888999999999999999999999999999999999987776666554322 1    467999999999986422  


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..+...++++.++++   ++++||++|.|++++|+++.+.+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         136 PERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             HHHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence            123345667777764   89999999999999999998765

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.

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.85  E-value=6.6e-20  Score=126.06  Aligned_cols=128  Identities=18%  Similarity=0.312  Sum_probs=98.6

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP   89 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p   89 (159)
                      .+.||.+... ..+.+++  +++.+||+||++++..++..+++++|++++|+|+++++++.....|+..+.+.....++|
T Consensus        44 ~~~~t~~~~~-~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~p  120 (184)
T smart00178       44 QHQPTQHPTS-EELAIGN--IKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVP  120 (184)
T ss_pred             ccCCccccce-EEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCC
Confidence            4567766432 2334444  556779999999999999999999999999999999999999888888877644446789


Q ss_pred             EEEEEeCCCCCCcCCCCHHHHHHHHHH------------cCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         90 MLMVGNKADLDHQRQVSSMDAQNVARQ------------LRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        90 ~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +++|+||+|+..  .++.++......-            ....+++|||++|.|++++++|+...
T Consensus       121 iliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      121 FLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            999999999863  4455555433211            12348999999999999999999764

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.85  E-value=3.5e-20  Score=123.52  Aligned_cols=133  Identities=23%  Similarity=0.347  Sum_probs=103.1

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|..++.||++..+.. +..++  +.+.+||+||++++..++..+++++|++++|+|++++.++.....|+..+....
T Consensus        21 ~~~~~~~~~~t~~~~~~~-~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~   97 (159)
T cd04159          21 GGQFSEDTIPTVGFNMRK-VTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRTALEAAKNELHDLLEKP   97 (159)
T ss_pred             cCCCCcCccCCCCcceEE-EEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHcCh
Confidence            456888899999866532 33344  677889999999999999999999999999999999999988888888876654


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHH-----HHcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-----RQLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ...++|+++|+||+|+.+...  ..+.....     ...+++++++||++|.|++++++++.+
T Consensus        98 ~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159          98 SLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             hhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            445789999999999865332  22221111     112357899999999999999999875

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.

>KOG0071|consensus

Probab=99.82  E-value=3.3e-19  Score=113.82  Aligned_cols=131  Identities=16%  Similarity=0.239  Sum_probs=106.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      +.+..||+|....   ++.-+++++++||++|+++.+++|++|+.+.-++|||.|..+.+..+++..-+..+.+..+..+
T Consensus        42 ~~~~ipTvGFnve---tVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~  118 (180)
T KOG0071|consen   42 SVTTIPTVGFNVE---TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRD  118 (180)
T ss_pred             CcccccccceeEE---EEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhc
Confidence            3456788886643   3344567788899999999999999999999999999999999999999877778777777778


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-----CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .|+++.+||.|+++  +.+++++..+.+-.     ..-+.++||.+|+|+.+.|.|++..+
T Consensus       119 ~~~LvlANkQDlp~--A~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  119 AIILILANKQDLPD--AMKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             ceEEEEecCccccc--ccCHHHHHHHhccccccCCccEeeccccccchhHHHHHHHHHhhc
Confidence            99999999999875  44566666654322     23478999999999999999998765

>cd04155 Arl3 Arl3 subfamily

Probab=99.81  E-value=1.6e-18  Score=117.77  Aligned_cols=125  Identities=21%  Similarity=0.352  Sum_probs=95.7

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ..+.||.|..+ ..+..++.  .+.+||++|+.++...+..+++++|++++|+|+++..++.....|+..+.......++
T Consensus        40 ~~~~~t~g~~~-~~i~~~~~--~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (173)
T cd04155          40 SHITPTQGFNI-KTVQSDGF--KLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGV  116 (173)
T ss_pred             cccCCCCCcce-EEEEECCE--EEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCC
Confidence            34677777443 34455554  4566999999998888999999999999999999999999888887777665444578


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC--------cEEEeCCCCCCCHHHHHHHHHH
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVARQLRI--------PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      |+++++||+|+.+...  .   ..+.+.+++        +++++||++|.|++++|+|+++
T Consensus       117 p~ivv~nK~D~~~~~~--~---~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         117 PVLVFANKQDLATAAP--A---EEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             CEEEEEECCCCccCCC--H---HHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            9999999999864321  2   233344442        3789999999999999999975

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.

>KOG1673|consensus

Probab=99.80  E-value=2.8e-19  Score=116.06  Aligned_cols=142  Identities=23%  Similarity=0.348  Sum_probs=120.3

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      |+++.+.+.+..|.|..+ .+.+.+.|..+.+.+||.+|++++..+.+...+++-+++|+||++.++++..+..|+.+..
T Consensus        40 YV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~QAr  119 (205)
T KOG1673|consen   40 YVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQAR  119 (205)
T ss_pred             hhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHHHh
Confidence            567888889999999777 8999999999999999999999998888888899999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC----c--CCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH----Q--RQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~----~--~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..+.  ..-.|+||+|.|+--    +  +.+ ..+++.+|+..+.+.+.||+....|+..+|.-+...+...
T Consensus       120 ~~Nk--tAiPilvGTKyD~fi~lp~e~Q~~I-~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  120 GLNK--TAIPILVGTKYDLFIDLPPELQETI-SRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFNL  188 (205)
T ss_pred             ccCC--ccceEEeccchHhhhcCCHHHHHHH-HHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence            7753  234466799999631    1  112 2356788999999999999999999999999988777543

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.80  E-value=6.1e-18  Score=119.03  Aligned_cols=144  Identities=32%  Similarity=0.441  Sum_probs=113.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh-hhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR-NSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~-~s~~~~~~~~~~i~   80 (159)
                      .++.|...++||++..+ .......+..+++.+|||+|+++++.+++.|+.+++++++|||.++. .+++....|...+.
T Consensus        26 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~  105 (219)
T COG1100          26 VGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELR  105 (219)
T ss_pred             hcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHH
Confidence            46788899999999777 56666666689999999999999999999999999999999999994 45555668988887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcC------------CCCHHHHHHHHHHc---CCcEEEeCCC--CCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNVARQL---RIPYIECSAK--VRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~---~~~~~~~sa~--~~~~i~~~~~~l~~~~  143 (159)
                      .... .+.|+++++||+|+....            ..........+...   ...++++|++  .+.++.++|..++..+
T Consensus       106 ~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~  184 (219)
T COG1100         106 ELAP-DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKL  184 (219)
T ss_pred             HhCC-CCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHH
Confidence            7653 468999999999997653            22232323333222   2338999999  9999999999999988


Q ss_pred             Hhcc
Q psy11289        144 LLHT  147 (159)
Q Consensus       144 ~~~~  147 (159)
                      ....
T Consensus       185 ~~~~  188 (219)
T COG1100         185 LEEI  188 (219)
T ss_pred             HHhh
Confidence            6543

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.80  E-value=6.2e-18  Score=125.66  Aligned_cols=137  Identities=17%  Similarity=0.145  Sum_probs=99.8

Q ss_pred             cccccccccceEEEEEEE-CCeeEEEEEEeCCCcccc----hHHHHH---HhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEEF----SAMREQ---YMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~----~~~~~~---~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ..+|+.|+-......+.+ ++..  +.+||+||...-    ..+...   .++.++++++|+|++++++++++..|..++
T Consensus       185 va~ypfTT~~p~~G~v~~~~~~~--~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL  262 (335)
T PRK12299        185 IADYPFTTLHPNLGVVRVDDYKS--FVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNEL  262 (335)
T ss_pred             cCCCCCceeCceEEEEEeCCCcE--EEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHH
Confidence            345665655444444555 3445  455999998431    123333   456799999999999988899999999888


Q ss_pred             HhhcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         80 LRVKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        80 ~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..+.. ..++|+++|+||+|+.+...+..+....+++..+.+++++||+++.|++++++++.+.+.+.
T Consensus       263 ~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~~  330 (335)
T PRK12299        263 EKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELLEEA  330 (335)
T ss_pred             HHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHhh
Confidence            77643 24689999999999876554444445555566678999999999999999999999887653

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.78  E-value=3.9e-17  Score=107.33  Aligned_cols=133  Identities=42%  Similarity=0.708  Sum_probs=102.9

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      .....+|..+.+.......+....+.+||++|...+...+..+++.+|++++|+|++++.++..+..|...........+
T Consensus        23 ~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~  102 (157)
T cd00882          23 PEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGEN  102 (157)
T ss_pred             CcccccchhheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCC
Confidence            34555666444466667677778889999999998888888899999999999999999999998877434334334468


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHH-HHHHHHHcCCcEEEeCCCCCCCHHHHHHHHH
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMD-AQNVARQLRIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      .|+++++||+|+.......... ........+++++++|+.++.|+.++++++.
T Consensus       103 ~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         103 IPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            9999999999986544433322 3444555678899999999999999999875

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

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.78  E-value=1.2e-17  Score=112.92  Aligned_cols=111  Identities=17%  Similarity=0.201  Sum_probs=80.2

Q ss_pred             eEEEEEEeCCCcccch---------HHHHHHhhcCCEEEEEEECCChhh--HHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         29 PARLDILDTAGQEEFS---------AMREQYMRSGEGFLLVFSVTDRNS--FEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~---------~~~~~~~~~~~~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      .+.+++|||||+....         .........+|++++|+|+++..+  ++....|+..+....  .+.|+++|+||+
T Consensus        46 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~--~~~pvilv~NK~  123 (168)
T cd01897          46 YLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF--KNKPVIVVLNKI  123 (168)
T ss_pred             ceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhc--CcCCeEEEEEcc
Confidence            3567779999984210         111112234689999999998765  356667887776543  478999999999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      |+.+...+..  ...++...+.+++++||++|.|++++|+++.+.+
T Consensus       124 Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         124 DLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             ccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence            9876444332  4455555668899999999999999999998875

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.

>cd01898 Obg Obg subfamily

Probab=99.78  E-value=1e-17  Score=113.32  Aligned_cols=112  Identities=17%  Similarity=0.219  Sum_probs=84.3

Q ss_pred             EEEEEEeCCCcc----cchHHHHHH---hhcCCEEEEEEECCCh-hhHHHHHHHHHHHHhhcC-CCCCcEEEEEeCCCCC
Q psy11289         30 ARLDILDTAGQE----EFSAMREQY---MRSGEGFLLVFSVTDR-NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADLD  100 (159)
Q Consensus        30 ~~~~l~D~~g~~----~~~~~~~~~---~~~~~~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~-~~~~p~ivv~nK~D~~  100 (159)
                      ..+.+|||||+.    .+..+...+   ++.+|++++|+|++++ ++++.+..|.+.+..... ..++|+++|+||+|+.
T Consensus        48 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~  127 (170)
T cd01898          48 RSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLL  127 (170)
T ss_pred             CeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcC
Confidence            356779999973    222233333   3469999999999999 899999999888876542 2368999999999986


Q ss_pred             CcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        101 HQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +.... .+....+.... +.+++++||+++.|++++|+++.+.
T Consensus       128 ~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         128 DEEEL-FELLKELLKELWGKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             Cchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence            65444 33344555553 6889999999999999999999864

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.

>KOG4423|consensus

Probab=99.77  E-value=9.1e-21  Score=126.31  Aligned_cols=147  Identities=27%  Similarity=0.415  Sum_probs=123.0

Q ss_pred             cccccccccccccccceE-EEEEEECCe-eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDI-PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~-~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      |++..|.-.|-.|||..| .+....+++ .++++|||+.|+++|..+...|++.+++..+|||+++.-+|+....|.+.+
T Consensus        45 yv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdl  124 (229)
T KOG4423|consen   45 YVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDL  124 (229)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhc
Confidence            456778888999999777 777777764 578999999999999999999999999999999999999999999999887


Q ss_pred             HhhcCC---CCCcEEEEEeCCCCCCcCCCC-HHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         80 LRVKDR---DEFPMLMVGNKADLDHQRQVS-SMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        80 ~~~~~~---~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .....+   ...|+++.+||+|........ .....++++++|+. ++++|++.+.|++|+-+.+++.++..-.
T Consensus       125 dsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~  198 (229)
T KOG4423|consen  125 DSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVNDE  198 (229)
T ss_pred             cCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHHHhhcc
Confidence            665543   357899999999985432221 35667888899976 9999999999999999999998886653

>KOG0076|consensus

Probab=99.77  E-value=2.5e-18  Score=113.48  Aligned_cols=131  Identities=23%  Similarity=0.360  Sum_probs=103.8

Q ss_pred             ccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE
Q psy11289         11 YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM   90 (159)
Q Consensus        11 ~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~   90 (159)
                      -.||+|-.. .++.+++..  +.+||.+|++..+++|..|+..+|++|+++|+++++.|+....-++.+.......++|+
T Consensus        53 i~~tvgLni-g~i~v~~~~--l~fwdlgGQe~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~  129 (197)
T KOG0076|consen   53 ITPTVGLNI-GTIEVCNAP--LSFWDLGGQESLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPV  129 (197)
T ss_pred             eecccceee-cceeeccce--eEEEEcCChHHHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCch
Confidence            356666443 334445444  45699999999999999999999999999999999999998887888777766689999


Q ss_pred             EEEEeCCCCCCcCCCCHHHHHHHH---HHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         91 LMVGNKADLDHQRQVSSMDAQNVA---RQL---RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        91 ivv~nK~D~~~~~~~~~~~~~~~~---~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ++.+||.|+.+..  ..++.....   +..   .+++.+|||.+|.||.+..+|++..+.++
T Consensus       130 L~lankqd~q~~~--~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  130 LVLANKQDLQNAM--EAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhhcchhhhhhhh--hHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            9999999987533  233443333   333   36799999999999999999999988776

>KOG0072|consensus

Probab=99.77  E-value=2.7e-18  Score=110.17  Aligned_cols=133  Identities=16%  Similarity=0.164  Sum_probs=103.0

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ....||+|.... .+  .-++.++++||.+|+-..++.|+.|+.+.+++|+|+|.+|.+..--....+..+++..+..+.
T Consensus        44 vttkPtigfnve-~v--~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a  120 (182)
T KOG0072|consen   44 VTTKPTIGFNVE-TV--PYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHA  120 (182)
T ss_pred             cccCCCCCcCcc-cc--ccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCc
Confidence            455678876642 22  236677888999999999999999999999999999999999887777777778887777788


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHH-----HHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQ-----NVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~-----~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      -+++++||.|.+.  ..+..++.     +..+..-+.++++||.+|.|++++++|+.+.+.++
T Consensus       121 ~llv~anKqD~~~--~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  121 KLLVFANKQDYSG--ALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             eEEEEeccccchh--hhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHhcc
Confidence            8899999999764  22233322     12222236699999999999999999999987654

>cd04171 SelB SelB subfamily

Probab=99.77  E-value=2.6e-17  Score=110.49  Aligned_cols=112  Identities=18%  Similarity=0.134  Sum_probs=77.4

Q ss_pred             EEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         22 QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        22 ~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      .+.+++ ...+++|||||++++......+++++|++++|+|+++   +++.+.+.    .+ +..  ...|+++++||+|
T Consensus        44 ~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~----~~-~~~--~~~~~ilv~NK~D  115 (164)
T cd04171          44 YLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLE----IL-ELL--GIKRGLVVLTKAD  115 (164)
T ss_pred             EEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHH----HH-HHh--CCCcEEEEEECcc
Confidence            344442 2467779999999987767777889999999999987   44444332    11 211  2248999999999


Q ss_pred             CCCcCCC--CHHHHHHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         99 LDHQRQV--SSMDAQNVARQ---LRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        99 ~~~~~~~--~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      +.+....  ..++..+..+.   .+.+++++||++|.|++++++.+.+
T Consensus       116 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         116 LVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             ccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            8653211  12233333333   3578999999999999999998754

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.76  E-value=7.5e-17  Score=106.96  Aligned_cols=133  Identities=33%  Similarity=0.493  Sum_probs=104.2

Q ss_pred             ccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh-hhHHHHH-HHHHHHHh
Q psy11289          5 SYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR-NSFEEIY-KFHRQILR   81 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~-~s~~~~~-~~~~~i~~   81 (159)
                      +.+...+.|+++..+ ...+..++..+.+.+||+||+.++..++..+.+.+++++.++|.... .++.... .|...+..
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~  103 (161)
T TIGR00231        24 NKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIH  103 (161)
T ss_pred             CCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHH
Confidence            346667777887555 55577888778888999999999999999999999999999999887 7776665 77777777


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL  139 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  139 (159)
                      .... +.|+++++||.|+.... ........+......+++++||++|.|+.++|+++
T Consensus       104 ~~~~-~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231       104 HAES-NVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             hccc-CCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            6542 78999999999986543 33333334444445789999999999999999886

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.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.76  E-value=4.9e-17  Score=108.61  Aligned_cols=123  Identities=15%  Similarity=0.236  Sum_probs=90.4

Q ss_pred             ccccccceEEEEEEECCeeEEEEEEeCCCcccchH------HHHHHhh--cCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289         11 YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA------MREQYMR--SGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus        11 ~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++++-+.....+.+++..  +.+|||||+..+..      ++..++.  ++|++++|+|++++++..   .|...+.+ 
T Consensus        26 ~~~~t~~~~~~~~~~~~~~--~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~---~~~~~~~~-   99 (158)
T cd01879          26 WPGVTVEKKEGRFKLGGKE--IEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERNL---YLTLQLLE-   99 (158)
T ss_pred             CCCcccccceEEEeeCCeE--EEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhHH---HHHHHHHH-
Confidence            3333334445667777754  56799999987653      4566664  999999999999865533   34444433 


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                         .++|+++|+||+|+.+...+.. ....++..++++++++||.+|.|+.++++++...+
T Consensus       100 ---~~~~~iiv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~~  156 (158)
T cd01879         100 ---LGLPVVVALNMIDEAEKRGIKI-DLDKLSELLGVPVVPTSARKGEGIDELKDAIAELA  156 (158)
T ss_pred             ---cCCCEEEEEehhhhcccccchh-hHHHHHHhhCCCeEEEEccCCCCHHHHHHHHHHHh
Confidence               3689999999999976554443 34577777899999999999999999999998764

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.

>KOG0096|consensus

Probab=99.75  E-value=1.7e-18  Score=115.79  Aligned_cols=139  Identities=26%  Similarity=0.470  Sum_probs=115.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|..+|.||+|... .-...-|...+++..|||.|++++..+...|+=.+.+.|++||++..-++.++.+|...+.+
T Consensus        31 ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~r  110 (216)
T KOG0096|consen   31 LTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVR  110 (216)
T ss_pred             hcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhcchHHHHHHHH
Confidence            36899999999999665 43334355579999999999999998888888888999999999999999999999999999


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+  .++|++++|||.|.....  .......+-+..++.+++.||+++-|....|-|+.+.+..
T Consensus       111 v~--~NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~G  170 (216)
T KOG0096|consen  111 VR--ENIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLTG  170 (216)
T ss_pred             Hh--cCCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHHhhhhcC
Confidence            87  679999999999975433  1233344555667889999999999999999999987653

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.75  E-value=2.7e-17  Score=113.96  Aligned_cols=128  Identities=19%  Similarity=0.228  Sum_probs=86.2

Q ss_pred             cccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEE
Q psy11289         14 TIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLM   92 (159)
Q Consensus        14 t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~iv   92 (159)
                      +.|..+ .....++...+.+++|||||+++|...+..+++++|++++|||+++.. +.....|+..+..    .++|+++
T Consensus        48 ~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~----~~~p~ii  122 (194)
T cd01891          48 ERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALE----LGLKPIV  122 (194)
T ss_pred             hcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCc-cHHHHHHHHHHHH----cCCCEEE
Confidence            344333 444555556677888999999999999999999999999999998742 2233334443322    4689999


Q ss_pred             EEeCCCCCCcCCC-CHHHHHHHHH-------HcCCcEEEeCCCCCCCHHHH------HHHHHHHHHhc
Q psy11289         93 VGNKADLDHQRQV-SSMDAQNVAR-------QLRIPYIECSAKVRINVDQA------FHELVRIVLLH  146 (159)
Q Consensus        93 v~nK~D~~~~~~~-~~~~~~~~~~-------~~~~~~~~~sa~~~~~i~~~------~~~l~~~~~~~  146 (159)
                      |+||+|+.+.+.. ..++...+..       ..+++++++||++|.|+.+.      +++++..+...
T Consensus       123 v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~  190 (194)
T cd01891         123 VINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWASLNLEDPSEDLEPLFDTIIEH  190 (194)
T ss_pred             EEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhccccccccccchhhHHHHHHHHHhc
Confidence            9999998643321 1233444442       23678999999999876433      55555555443

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.74  E-value=2.6e-17  Score=127.86  Aligned_cols=140  Identities=17%  Similarity=0.178  Sum_probs=96.4

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcc----------cchHHH-HHHhhcCCEEEEEEECCChhhHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE----------EFSAMR-EQYMRSGEGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~----------~~~~~~-~~~~~~~~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      .+..+++|+.+.+...+..++..+.  +|||||..          .|..+. ..+++++|++++|+|++++.++.++. +
T Consensus       238 ~~s~~~gtT~d~~~~~~~~~~~~~~--l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~vilV~Da~~~~s~~~~~-~  314 (472)
T PRK03003        238 VVDDVAGTTVDPVDSLIELGGKTWR--FVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEVAVVLIDASEPISEQDQR-V  314 (472)
T ss_pred             cccCCCCccCCcceEEEEECCEEEE--EEECCCccccccccchHHHHHHHHHHHHHhcCCEEEEEEeCCCCCCHHHHH-H
Confidence            3556667776777777888888764  69999963          333332 23578999999999999988887763 4


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHH-HHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCC
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQ-NVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKN  152 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~-~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~  152 (159)
                      +..+..    .++|+++|+||+|+.+.....  ..+.. .++....++++++||++|.|++++|+.+.+.+.........
T Consensus       315 ~~~~~~----~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~~~~~~i~t  390 (472)
T PRK03003        315 LSMVIE----AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALESWDTRIPT  390 (472)
T ss_pred             HHHHHH----cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcccCCH
Confidence            444433    568999999999986422110  11111 12222237899999999999999999999887655544433


Q ss_pred             C
Q psy11289        153 S  153 (159)
Q Consensus       153 ~  153 (159)
                      +
T Consensus       391 ~  391 (472)
T PRK03003        391 G  391 (472)
T ss_pred             H
Confidence            3

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.74  E-value=1.3e-16  Score=126.53  Aligned_cols=115  Identities=20%  Similarity=0.278  Sum_probs=91.3

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++..+.+....|...+ .    .++|+++|+||+|+.+..  
T Consensus        66 ~g~~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~-~----~~ipiIiViNKiDl~~~~--  138 (595)
T TIGR01393        66 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLAL-E----NDLEIIPVINKIDLPSAD--  138 (595)
T ss_pred             CCCEEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHH-H----cCCCEEEEEECcCCCccC--
Confidence            567789999999999999999999999999999999999977766666554332 1    467999999999986422  


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..+...++++.++++   ++++||++|.|++++|+++.+.+....
T Consensus       139 ~~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp~p~  183 (595)
T TIGR01393       139 PERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVPPPK  183 (595)
T ss_pred             HHHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCCCCC
Confidence            123345666667764   899999999999999999998775443

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.73  E-value=1.8e-16  Score=121.87  Aligned_cols=128  Identities=17%  Similarity=0.216  Sum_probs=99.2

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH--------HHHHhhcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM--------REQYMRSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      ..++.++++|+.+.+...+.++|.++  .+|||||...+...        ...+++++|++++|||++++.+++..  |+
T Consensus       228 ~aivs~~pgtTrd~~~~~i~~~g~~v--~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l  303 (442)
T TIGR00450       228 RAIVSDIKGTTRDVVEGDFELNGILI--KLLDTAGIREHADFVERLGIEKSFKAIKQADLVIYVLDASQPLTKDDF--LI  303 (442)
T ss_pred             CcccCCCCCcEEEEEEEEEEECCEEE--EEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEEEEECCCCCChhHH--HH
Confidence            34677888888777788888888775  56999999655432        23567899999999999998887765  66


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..+..    .++|+++|+||+|+.+.      +...+++.++++++++||++ .|+.++|+.+.+.+.+..
T Consensus       304 ~~~~~----~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       304 IDLNK----SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             HHHhh----CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence            55532    46899999999998643      22355667788999999998 699999999998887653

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.73  E-value=2.9e-16  Score=116.65  Aligned_cols=132  Identities=18%  Similarity=0.228  Sum_probs=93.7

Q ss_pred             ccccccccceEEEEEEECC-eeEEEEEEeCCCcccc----hHHHHHH---hhcCCEEEEEEECCCh---hhHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDD-IPARLDILDTAGQEEF----SAMREQY---MRSGEGFLLVFSVTDR---NSFEEIYKFHR   77 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~-~~~~~~l~D~~g~~~~----~~~~~~~---~~~~~~ii~v~d~~~~---~s~~~~~~~~~   77 (159)
                      .+|+.|+-......+.+++ ..  +.+||+||....    ..+...+   ++.++++++|+|+++.   ++++.+..|.+
T Consensus       185 a~y~fTT~~p~ig~v~~~~~~~--~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~  262 (329)
T TIGR02729       185 ADYPFTTLVPNLGVVRVDDGRS--FVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRN  262 (329)
T ss_pred             cCCCCCccCCEEEEEEeCCceE--EEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHH
Confidence            3455554433334445554 44  566999998532    1233344   4579999999999987   67888888888


Q ss_pred             HHHhhcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         78 QILRVKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        78 ~i~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ++..+.. ..++|+++|+||+|+.+.... .+....+++.++.+++++||+++.|++++++++.+.+
T Consensus       263 EL~~~~~~l~~kp~IIV~NK~DL~~~~~~-~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       263 ELKKYSPELAEKPRIVVLNKIDLLDEEEL-AELLKELKKALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             HHHHhhhhhccCCEEEEEeCccCCChHHH-HHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            7776642 246899999999998654322 3344556667788999999999999999999998754

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.73  E-value=9.7e-17  Score=108.96  Aligned_cols=133  Identities=17%  Similarity=0.210  Sum_probs=92.1

Q ss_pred             cccccccccceEEEEEEEC-CeeEEEEEEeCCCccc----chHH---HHHHhhcCCEEEEEEECCCh------hhHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVID-DIPARLDILDTAGQEE----FSAM---REQYMRSGEGFLLVFSVTDR------NSFEEIY   73 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~----~~~~---~~~~~~~~~~ii~v~d~~~~------~s~~~~~   73 (159)
                      ..++++|+.+.....+.++ +.+  +.+||+||...    ...+   ...+++++|++++|+|++++      .++.++.
T Consensus        23 ~~~~~~~t~~~~~~~~~~~~~~~--~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~  100 (176)
T cd01881          23 VANYPFTTLEPNLGVVEVPDGAR--IQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYE  100 (176)
T ss_pred             ccCCCceeecCcceEEEcCCCCe--EEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHH
Confidence            4455555544433445555 555  56699999732    1122   23456789999999999998      5788888


Q ss_pred             HHHHHHHhhcCC------CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         74 KFHRQILRVKDR------DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        74 ~~~~~i~~~~~~------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .|...+......      .+.|+++|+||+|+..............+...+.+++++||+++.|++++++++...
T Consensus       101 ~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         101 ILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             HHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            887777655321      468999999999987544433322233444456789999999999999999998764

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.72  E-value=4e-17  Score=107.52  Aligned_cols=98  Identities=22%  Similarity=0.173  Sum_probs=75.2

Q ss_pred             EEEeCCCcc-----cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         33 DILDTAGQE-----EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        33 ~l~D~~g~~-----~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      .+|||||+.     .+..+.. .++++|++++|||++++.++.. ..|...    .   ..|+++|+||+|+.+ +....
T Consensus        38 ~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d~~~~~s~~~-~~~~~~----~---~~p~ilv~NK~Dl~~-~~~~~  107 (142)
T TIGR02528        38 GAIDTPGEYVENRRLYSALIV-TAADADVIALVQSATDPESRFP-PGFASI----F---VKPVIGLVTKIDLAE-ADVDI  107 (142)
T ss_pred             eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEecCCCCCcCCC-hhHHHh----c---cCCeEEEEEeeccCC-cccCH
Confidence            469999982     3444433 4789999999999999998755 344322    1   249999999999865 34456


Q ss_pred             HHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHH
Q psy11289        108 MDAQNVARQLRI-PYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       108 ~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      ++..++++..+. +++++||++|.|++++|+++.
T Consensus       108 ~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       108 ERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             HHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            677788888776 799999999999999999874

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.71  E-value=7.5e-16  Score=102.60  Aligned_cols=124  Identities=15%  Similarity=0.157  Sum_probs=86.2

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      +.+.+++++.+........++..  +.+|||||...+..        .+...++++|++++|+|..++.+.... .+...
T Consensus        24 ~~~~~~~~t~~~~~~~~~~~~~~--~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~-~~~~~  100 (157)
T cd01894          24 IVEDTPGVTRDRIYGEAEWGGRE--FILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADE-EIAKY  100 (157)
T ss_pred             eecCCCCceeCceeEEEEECCeE--EEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHH-HHHHH
Confidence            45566666665555566666654  56699999987543        334567889999999999876544332 12222


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +..    .+.|+++|+||+|+.+....     ......+++ +++++|+++|.|++++|++++++
T Consensus       101 ~~~----~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         101 LRK----SKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             HHh----cCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHHHHHHHhh
Confidence            222    35899999999998653221     233445666 78999999999999999999875

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.70  E-value=4.1e-16  Score=120.00  Aligned_cols=133  Identities=20%  Similarity=0.205  Sum_probs=91.1

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH-----------HHHHhhcCCEEEEEEECCChhhHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM-----------REQYMRSGEGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-----------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      ....+++|+.+.+...+..++..  +.+|||||..++...           ...+++.+|++++|+|++++.+..+.. +
T Consensus       199 ~~~~~~gtt~~~~~~~~~~~~~~--~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~-~  275 (429)
T TIGR03594       199 IVSDIAGTTRDSIDIPFERNGKK--YLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLR-I  275 (429)
T ss_pred             ecCCCCCceECcEeEEEEECCcE--EEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHH-H
Confidence            45566777777766667777775  455999997554321           123578999999999999987776643 3


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH-HHHHHHc----CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA-QNVARQL----RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +..+..    .++|+++|+||+|+.+.. ...++. ..+...+    +++++++||++|.|++++|+++...+....
T Consensus       276 ~~~~~~----~~~~iiiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~~~~  347 (429)
T TIGR03594       276 AGLILE----AGKALVIVVNKWDLVKDE-KTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYENAN  347 (429)
T ss_pred             HHHHHH----cCCcEEEEEECcccCCCH-HHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            333332    468999999999986211 111122 2222222    478999999999999999999998776543

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.

>cd01878 HflX HflX subfamily

Probab=99.70  E-value=4.7e-16  Score=108.45  Aligned_cols=114  Identities=18%  Similarity=0.214  Sum_probs=82.1

Q ss_pred             EEEEECCeeEEEEEEeCCCcccc---------hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEF---------SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML   91 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~---------~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i   91 (159)
                      ..+..++. ..+.+|||||..+.         ...+ ..+.++|++++|+|++++.++.....|.+.+.... ..+.|++
T Consensus        81 ~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~-~~~~~vi  157 (204)
T cd01878          81 RRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKELG-AEDIPMI  157 (204)
T ss_pred             EEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcC-cCCCCEE
Confidence            33444443 24666999998321         1111 23568999999999999999888777776665543 2468999


Q ss_pred             EEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         92 MVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        92 vv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +|+||+|+.+....     ...+...+.+++++||++|.|+.++++++...
T Consensus       158 iV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         158 LVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             EEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence            99999998653322     13444556789999999999999999999765

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.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.69  E-value=1.7e-15  Score=102.19  Aligned_cols=110  Identities=17%  Similarity=0.229  Sum_probs=76.0

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC-H
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS-S  107 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~-~  107 (159)
                      ...+.+|||||+..+..++..++..+|++++|+|+++........ .+..+..    .++|+++|+||+|+.+...-. .
T Consensus        49 ~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~-~~~~~~~----~~~p~ivv~NK~Dl~~~~~~~~~  123 (168)
T cd01887          49 IPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTIE-AIKLAKA----ANVPFIVALNKIDKPNANPERVK  123 (168)
T ss_pred             cceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHHH-HHHHHHH----cCCCEEEEEEceecccccHHHHH
Confidence            456677999999999888888999999999999998843222111 1122222    467999999999986422100 1


Q ss_pred             HHHHHHHH----Hc--CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        108 MDAQNVAR----QL--RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       108 ~~~~~~~~----~~--~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +....+..    ..  .++++++||++|.|+.++++++.+..
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         124 NELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             HHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhh
Confidence            11111111    11  36799999999999999999998764

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.68  E-value=8.5e-16  Score=118.56  Aligned_cols=122  Identities=25%  Similarity=0.308  Sum_probs=93.4

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH--------HHHHhhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM--------REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      ++.++++|+.+.....+.++|.++  .+|||+|...+...        ...+++++|++++|||++++.++++...|.. 
T Consensus       242 ~v~~~~gtT~d~~~~~i~~~g~~i--~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~-  318 (449)
T PRK05291        242 IVTDIAGTTRDVIEEHINLDGIPL--RLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEE-  318 (449)
T ss_pred             ccCCCCCcccccEEEEEEECCeEE--EEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh-
Confidence            567777887777777788888765  55999998765432        2346789999999999999988776544432 


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                            ..+.|+++|+||+|+.+.....        ...+.+++++||++|.|++++++++.+.+..
T Consensus       319 ------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        319 ------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             ------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence                  2568999999999986533221        3345779999999999999999999998764

>PRK04213 GTP-binding protein; Provisional

Probab=99.68  E-value=1.8e-16  Score=110.26  Aligned_cols=108  Identities=16%  Similarity=0.149  Sum_probs=72.4

Q ss_pred             EEEEEeCCC-----------cccchHHHHHHhh----cCCEEEEEEECCChhhHHHHHHHH--------HHHHhhcCCCC
Q psy11289         31 RLDILDTAG-----------QEEFSAMREQYMR----SGEGFLLVFSVTDRNSFEEIYKFH--------RQILRVKDRDE   87 (159)
Q Consensus        31 ~~~l~D~~g-----------~~~~~~~~~~~~~----~~~~ii~v~d~~~~~s~~~~~~~~--------~~i~~~~~~~~   87 (159)
                      .+.+|||||           ++++.+.+..++.    .++++++|+|.++...+.  .+|.        ..+.......+
T Consensus        53 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~  130 (201)
T PRK04213         53 DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEII--ERWEGRGEIPIDVEMFDFLRELG  130 (201)
T ss_pred             ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccc--cccccCCCcHHHHHHHHHHHHcC
Confidence            367799999           5677777777764    346777888775532210  1121        01111111247


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC---------cEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVARQLRI---------PYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~---------~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +|+++|+||+|+.+..   .+...++++.+++         +++++||++| |++++++++.+.+.
T Consensus       131 ~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~  192 (201)
T PRK04213        131 IPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLH  192 (201)
T ss_pred             CCeEEEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhc
Confidence            8999999999986433   3455666777765         4799999999 99999999998764

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.68  E-value=3.3e-15  Score=111.93  Aligned_cols=126  Identities=21%  Similarity=0.219  Sum_probs=87.6

Q ss_pred             ccccccccccceEEEEEEE-CCeeEEEEEEeCCCccc---------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEE---------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~-~~~~~~~~l~D~~g~~~---------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      +..++++|+-+.....+.+ ++.+  +.+|||+|..+         |.+.+ ..+.++|++++|+|++++.+.+++..|.
T Consensus       215 ~v~~~~~tT~d~~~~~i~~~~~~~--i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADlil~VvD~s~~~~~~~~~~~~  291 (351)
T TIGR03156       215 YAADQLFATLDPTTRRLDLPDGGE--VLLTDTVGFIRDLPHELVAAFRATL-EEVREADLLLHVVDASDPDREEQIEAVE  291 (351)
T ss_pred             eeccCCccccCCEEEEEEeCCCce--EEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEEEEEEECCCCchHHHHHHHH
Confidence            3455555665556666677 4554  56699999832         22222 2478999999999999999888877665


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..+.... ..+.|+++|+||+|+.+...     ..... ....+++++||++|.|++++++++.+.
T Consensus       292 ~~L~~l~-~~~~piIlV~NK~Dl~~~~~-----v~~~~-~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       292 KVLEELG-AEDIPQLLVYNKIDLLDEPR-----IERLE-EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             HHHHHhc-cCCCCEEEEEEeecCCChHh-----HHHHH-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            5554432 34789999999999864221     11111 123468999999999999999998764

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).

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.67  E-value=1.5e-15  Score=120.53  Aligned_cols=126  Identities=13%  Similarity=0.243  Sum_probs=93.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH------HHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM------REQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~------~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ..++++++.+.....+..++.+  +++|||||++++.+.      ...++  +++|++++|+|.++.+..   ..+..++
T Consensus        21 v~n~pG~Tv~~~~~~i~~~~~~--i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler~---l~l~~ql   95 (591)
T TIGR00437        21 VGNWPGVTVEKKEGKLGFQGED--IEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLERN---LYLTLQL   95 (591)
T ss_pred             ecCCCCeEEEEEEEEEEECCeE--EEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchhh---HHHHHHH
Confidence            4556666555556667777766  466999999876542      34443  378999999999875432   2333333


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .+    .++|+++++||+|+.+.+.+.. +...+++.+|++++++||++|.|++++++++.+..
T Consensus        96 ~~----~~~PiIIVlNK~Dl~~~~~i~~-d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437        96 LE----LGIPMILALNLVDEAEKKGIRI-DEEKLEERLGVPVVPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             Hh----cCCCEEEEEehhHHHHhCCChh-hHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            32    4689999999999876565543 56788889999999999999999999999998764

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.66  E-value=1.5e-14  Score=110.29  Aligned_cols=131  Identities=16%  Similarity=0.173  Sum_probs=92.8

Q ss_pred             cccccccceEEEEEEEC-CeeEEEEEEeCCCccc----chHHHHHH---hhcCCEEEEEEECCCh---hhHHHHHHHHHH
Q psy11289         10 DYDPTIEDSYTKQCVID-DIPARLDILDTAGQEE----FSAMREQY---MRSGEGFLLVFSVTDR---NSFEEIYKFHRQ   78 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~----~~~~~~~~---~~~~~~ii~v~d~~~~---~s~~~~~~~~~~   78 (159)
                      +|+.|+-......+.++ +..  +.+||+||...    ...+...+   ++.++++++|+|+++.   +++++...|...
T Consensus       187 ~ypfTTl~PnlG~v~~~~~~~--~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~E  264 (424)
T PRK12297        187 NYHFTTLVPNLGVVETDDGRS--FVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKE  264 (424)
T ss_pred             cCCcceeceEEEEEEEeCCce--EEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHH
Confidence            44444443333334444 444  55699999743    22344444   4568999999999865   677777788888


Q ss_pred             HHhhcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         79 ILRVKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        79 i~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +..+.. ..++|.++|+||+|+.+.    .+....+++.++.+++++||+++.|++++++++.+.+.+.
T Consensus       265 L~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        265 LKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             HhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            777643 247899999999998431    3445667777778899999999999999999999887654

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.66  E-value=4.4e-15  Score=117.99  Aligned_cols=115  Identities=21%  Similarity=0.280  Sum_probs=89.3

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++....+....|.... .    .+.|+++|+||+|+.+..  
T Consensus        70 dg~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~-~----~~lpiIvViNKiDl~~a~--  142 (600)
T PRK05433         70 DGETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL-E----NDLEIIPVLNKIDLPAAD--  142 (600)
T ss_pred             CCCcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH-H----CCCCEEEEEECCCCCccc--
Confidence            566788999999999999999999999999999999999876555554443321 1    467999999999986422  


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ......++...++++   ++++||++|.|++++++++.+.+....
T Consensus       143 ~~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P~  187 (600)
T PRK05433        143 PERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIPPPK  187 (600)
T ss_pred             HHHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCcccc
Confidence            122234555556765   899999999999999999998876543

>TIGR00436 era GTP-binding protein Era

Probab=99.65  E-value=7.3e-15  Score=106.71  Aligned_cols=128  Identities=13%  Similarity=0.013  Sum_probs=86.6

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccc-hH-------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF-SA-------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-~~-------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      +...++|+..........++.  ++.+|||||.... ..       ....+++++|++++|+|+++..+..  ..++..+
T Consensus        28 vs~~~~TTr~~i~~i~~~~~~--qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~--~~i~~~l  103 (270)
T TIGR00436        28 TSPKAQTTRNRISGIHTTGAS--QIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDG--EFVLTKL  103 (270)
T ss_pred             cCCCCCcccCcEEEEEEcCCc--EEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchH--HHHHHHH
Confidence            345666777655444344444  4677999998542 11       1345578999999999999876664  3333333


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ..    .+.|+++|+||+|+.+.... .+....++...+. +++++||++|.|++++++++.+.+.
T Consensus       104 ~~----~~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l~  164 (270)
T TIGR00436       104 QN----LKRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEVHLP  164 (270)
T ss_pred             Hh----cCCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHhCC
Confidence            32    46899999999998642221 2233444444454 7999999999999999999988764

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.65  E-value=1.6e-15  Score=108.50  Aligned_cols=95  Identities=14%  Similarity=0.135  Sum_probs=78.5

Q ss_pred             ccchHHHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC
Q psy11289         41 EEFSAMREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI  119 (159)
Q Consensus        41 ~~~~~~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  119 (159)
                      +++..+.+.+++++|++++|||+++|. ++..+.+|+..+..    .++|+++|+||+|+.+.+.+..+....++ ..|+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~----~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~   98 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA----QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGY   98 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEECcccCCCHHHHHHHHHHHH-HCCC
Confidence            677788888999999999999999887 89999999876543    57899999999999755544434444444 5789


Q ss_pred             cEEEeCCCCCCCHHHHHHHHH
Q psy11289        120 PYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       120 ~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      +++++||++|.|++++|+.+.
T Consensus        99 ~v~~~SAktg~gi~eLf~~l~  119 (245)
T TIGR00157        99 QVLMTSSKNQDGLKELIEALQ  119 (245)
T ss_pred             eEEEEecCCchhHHHHHhhhc
Confidence            999999999999999998876

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.65  E-value=2.1e-15  Score=101.33  Aligned_cols=103  Identities=15%  Similarity=0.066  Sum_probs=76.3

Q ss_pred             EEeCCCcccchH----HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         34 ILDTAGQEEFSA----MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        34 l~D~~g~~~~~~----~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +|||||......    .....++++|++++|+|+++.+++.  ..|+..+   .  .++|+++++||+|+.+   ...+.
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~--~~~~~~~---~--~~~~ii~v~nK~Dl~~---~~~~~  110 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRL--PAGLLDI---G--VSKRQIAVISKTDMPD---ADVAA  110 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCccccc--CHHHHhc---c--CCCCeEEEEEccccCc---ccHHH
Confidence            599999832221    1123368999999999999887763  2344332   1  4579999999999864   23556


Q ss_pred             HHHHHHHcCC--cEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        110 AQNVARQLRI--PYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       110 ~~~~~~~~~~--~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..+++++.++  |++++||++|.|++++|+.+.+.+.+.
T Consensus       111 ~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~  149 (158)
T PRK15467        111 TRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE  149 (158)
T ss_pred             HHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence            6777778775  899999999999999999998876543

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.64  E-value=2.1e-15  Score=105.21  Aligned_cols=108  Identities=19%  Similarity=0.268  Sum_probs=75.8

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh----hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR----NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      .++.||||||++++...+...+.++|++++|+|++++    .+.+.+..    +...   ...|+++++||+|+.+....
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~----~~~~---~~~~iiivvNK~Dl~~~~~~  155 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAA----LEIM---GLKHIIIVQNKIDLVKEEQA  155 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHH----HHHc---CCCcEEEEEEchhccCHHHH
Confidence            5678899999998877777777889999999999874    23333322    2121   22478999999998642211


Q ss_pred             --CHHHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        106 --SSMDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       106 --~~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                        ..++...+++..   +++++++||++|.|++++++.+.+.+.
T Consensus       156 ~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~  199 (203)
T cd01888         156 LENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIP  199 (203)
T ss_pred             HHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCC
Confidence              112233333332   578999999999999999999987653

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.64  E-value=7.2e-15  Score=114.27  Aligned_cols=124  Identities=19%  Similarity=0.177  Sum_probs=85.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCccc--------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE--------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.++++.+.....+.+++..+  .+|||||.+.        +...+..+++.+|++|+|||+++..++.. ..|...+..
T Consensus        68 ~~~gvT~d~~~~~~~~~~~~~--~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~-~~i~~~l~~  144 (472)
T PRK03003         68 DVPGVTRDRVSYDAEWNGRRF--TVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATD-EAVARVLRR  144 (472)
T ss_pred             CCCCCCEeeEEEEEEECCcEE--EEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH
Confidence            333333455566677777764  5699999863        33445667899999999999998766543 233333332


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                          .++|+++|+||+|+....   .+....+  .+++ ..+++||++|.|++++|++++..+.+
T Consensus       145 ----~~~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        145 ----SGKPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             ----cCCCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCCcHHHHHHHHhhccc
Confidence                568999999999985421   1122222  3344 35799999999999999999988755

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.64  E-value=1.4e-14  Score=96.37  Aligned_cols=120  Identities=23%  Similarity=0.300  Sum_probs=85.8

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ..++++++.+.....+..++..  +.+|||||...+..        .....+..+|++++|+|++++.+......|..  
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~--~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~--  104 (157)
T cd04164          29 VSDIAGTTRDVIEESIDIGGIP--VRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILEL--  104 (157)
T ss_pred             ccCCCCCccceEEEEEEeCCEE--EEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHh--
Confidence            3444555545445556666555  56699999865432        12345678999999999999888777654332  


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                           ..+.|+++|+||+|+.+....       .....+.+++++||+++.|+.++++++...+
T Consensus       105 -----~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         105 -----PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             -----hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence                 257899999999998754432       3344467899999999999999999988754

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.63  E-value=1.6e-14  Score=114.38  Aligned_cols=110  Identities=19%  Similarity=0.273  Sum_probs=79.6

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      ..+..++.. .+.||||||++.|..++...++.+|++++|+|+++.   .+.+.+    ...    ...++|+++++||+
T Consensus       127 ~~v~~~~~~-~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i----~~~----~~~~vPiIVviNKi  197 (587)
T TIGR00487       127 YHVENEDGK-MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAI----SHA----KAANVPIIVAINKI  197 (587)
T ss_pred             EEEEECCCc-EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHH----HHH----HHcCCCEEEEEECc
Confidence            344554431 456799999999999999999999999999999873   444332    111    12568999999999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcC---------CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLR---------IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~---------~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+.+.   ..+.....+...+         .+++++||++|.|++++++++..+
T Consensus       198 Dl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~~  248 (587)
T TIGR00487       198 DKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILLQ  248 (587)
T ss_pred             ccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhhh
Confidence            98642   2334444433332         469999999999999999999754

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.63  E-value=1.9e-14  Score=96.29  Aligned_cols=105  Identities=19%  Similarity=0.264  Sum_probs=85.4

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ  111 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  111 (159)
                      +.|+|||||+||.-+|+.+.+++.++++++|.+.+..+ +....+..+...   ..+|+++.+||.|+..  ..++++.+
T Consensus        70 v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDss~~~~~-~a~~ii~f~~~~---~~ip~vVa~NK~DL~~--a~ppe~i~  143 (187)
T COG2229          70 VHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITF-HAEEIIDFLTSR---NPIPVVVAINKQDLFD--ALPPEKIR  143 (187)
T ss_pred             EEEecCCCcHHHHHHHHHHhCCcceEEEEEecCCCcch-HHHHHHHHHhhc---cCCCEEEEeeccccCC--CCCHHHHH
Confidence            45599999999999999999999999999999999888 555555444442   2289999999999975  44456666


Q ss_pred             HHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        112 NVARQL--RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       112 ~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ++.+..  .++.++.+|.++++..+.++.+...
T Consensus       144 e~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         144 EALKLELLSVPVIEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             HHHHhccCCCceeeeecccchhHHHHHHHHHhh
Confidence            665543  7899999999999999999888765

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.63  E-value=2.8e-14  Score=110.40  Aligned_cols=136  Identities=18%  Similarity=0.147  Sum_probs=91.7

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccc----hHHH---HHHhhcCCEEEEEEECCCh----hhHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF----SAMR---EQYMRSGEGFLLVFSVTDR----NSFEEIYKFHR   77 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~~---~~~~~~~~~ii~v~d~~~~----~s~~~~~~~~~   77 (159)
                      .+|+.|+-......+..++.+  +.+||+||....    ..+.   -..++.++++++|+|+++.    +.+.++..|..
T Consensus       187 adypfTTl~P~lGvv~~~~~~--f~laDtPGliegas~g~gLg~~fLrhieradvLv~VVD~s~~e~~rdp~~d~~~i~~  264 (500)
T PRK12296        187 ADYPFTTLVPNLGVVQAGDTR--FTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHVVDCATLEPGRDPLSDIDALEA  264 (500)
T ss_pred             cccCcccccceEEEEEECCeE--EEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEEECCcccccccCchhhHHHHHH
Confidence            466666655445555666654  566999997421    1122   2235789999999999863    35555555555


Q ss_pred             HHHhhc----------CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         78 QILRVK----------DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        78 ~i~~~~----------~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ++..+.          ...++|.++|+||+|+.+...+. +.........+++++++||+++.|++++++++.+.+....
T Consensus       265 EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        265 ELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELA-EFVRPELEARGWPVFEVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             HHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHH-HHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHhhh
Confidence            665543          22468999999999987543321 2222333455789999999999999999999998886544

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.63  E-value=1.6e-14  Score=114.55  Aligned_cols=131  Identities=17%  Similarity=0.175  Sum_probs=93.0

Q ss_pred             cccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHh
Q psy11289          6 YFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILR   81 (159)
Q Consensus         6 ~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~   81 (159)
                      .+.+++.+++...+ ...+..++  ..+.+||+||+++|...+...+.++|++++|+|+++   +.+.+++.    .+ .
T Consensus        27 ~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~----il-~   99 (581)
T TIGR00475        27 RLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLA----VL-D   99 (581)
T ss_pred             CChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHH----HH-H
Confidence            44445555554222 34456666  556779999999998888888899999999999998   55665542    12 2


Q ss_pred             hcCCCCCc-EEEEEeCCCCCCcCCC--CHHHHHHHHHHc----CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFP-MLMVGNKADLDHQRQV--SSMDAQNVARQL----RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p-~ivv~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .   .++| +++|+||+|+.+...+  ..++...+++..    +++++++||++|.|++++++.+...+...
T Consensus       100 ~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~~  168 (581)
T TIGR00475       100 L---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLESL  168 (581)
T ss_pred             H---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHHhC
Confidence            2   3567 9999999998654332  123445555554    47899999999999999999988766543

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.63  E-value=2e-14  Score=107.37  Aligned_cols=121  Identities=17%  Similarity=0.187  Sum_probs=82.2

Q ss_pred             cccceEEEEEEECCeeEEEEEEeCCCccc-chHHHH-------HHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHhhcC
Q psy11289         14 TIEDSYTKQCVIDDIPARLDILDTAGQEE-FSAMRE-------QYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILRVKD   84 (159)
Q Consensus        14 t~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~-------~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~   84 (159)
                      |+.+.....++.++.+  +.||||||... +..+..       ..++++|++++|+|.++  ++.... .|+..+..   
T Consensus        86 tTr~~~~~~~~~~~~q--i~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~--s~~~~~~~il~~l~~---  158 (339)
T PRK15494         86 TTRSIITGIITLKDTQ--VILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLK--SFDDITHNILDKLRS---  158 (339)
T ss_pred             CccCcEEEEEEeCCeE--EEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCC--CCCHHHHHHHHHHHh---
Confidence            3344445666777765  56799999843 322221       23679999999999765  344443 34444433   


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                       .+.|+++|+||+|+.+.   ...+..+++...+  .+++++||++|.|++++|+++...+.+
T Consensus       159 -~~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        159 -LNIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             -cCCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCCC
Confidence             34677899999998642   2345555555544  569999999999999999999886643

>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=99.62  E-value=1e-14  Score=97.01  Aligned_cols=124  Identities=19%  Similarity=0.278  Sum_probs=90.0

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccc------hHHHHHHh--hcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF------SAMREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~------~~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      ..+.+|++++-+.....+..++..+.+  +|+||....      ......++  ...|+++.|.|+++.+.-..   +..
T Consensus        25 ~~v~n~pG~Tv~~~~g~~~~~~~~~~l--vDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l~---l~~   99 (156)
T PF02421_consen   25 QKVGNWPGTTVEKKEGIFKLGDQQVEL--VDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNLY---LTL   99 (156)
T ss_dssp             EEEEESTTSSSEEEEEEEEETTEEEEE--EE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHHH---HHH
T ss_pred             ceecCCCCCCeeeeeEEEEecCceEEE--EECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHHH---HHH
Confidence            446788999888778888888877655  999996433      22334444  58999999999998543322   334


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHH
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL  139 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  139 (159)
                      ++.+    .++|++++.||+|...++.+.. +...+++.+|+|++++||+++.|++++++.+
T Consensus       100 ql~e----~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  100 QLLE----LGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             HHHH----TTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             HHHH----cCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            4444    4689999999999877666654 4678888999999999999999999999875

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 ....

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.62  E-value=2.7e-14  Score=99.62  Aligned_cols=98  Identities=14%  Similarity=0.260  Sum_probs=70.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcC-CEEEEEEECCCh-hhHHHHHHHHHHHHh
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSG-EGFLLVFSVTDR-NSFEEIYKFHRQILR   81 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~-~~ii~v~d~~~~-~s~~~~~~~~~~i~~   81 (159)
                      .+.|..+++++............+....+.+||+||+.++...+..+++++ +++|+|+|+++. .++..+..|+..+..
T Consensus        22 ~~~~~~t~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~  101 (203)
T cd04105          22 TGKYRSTVTSIEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILT  101 (203)
T ss_pred             cCCCCCccCcEeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHH
Confidence            445666665553322222222224456678899999999998888999998 999999999997 788888777766544


Q ss_pred             hcC--CCCCcEEEEEeCCCCCC
Q psy11289         82 VKD--RDEFPMLMVGNKADLDH  101 (159)
Q Consensus        82 ~~~--~~~~p~ivv~nK~D~~~  101 (159)
                      ...  ..++|+++++||+|+..
T Consensus       102 ~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105         102 DLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             HHhhccCCCCEEEEecchhhcc
Confidence            322  25789999999999854

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

>PRK11058 GTPase HflX; Provisional

Probab=99.62  E-value=4.9e-14  Score=107.94  Aligned_cols=130  Identities=18%  Similarity=0.188  Sum_probs=88.7

Q ss_pred             cccccccccceEEEEEEECCe-eEEEEEEeCCCcccc--hHHHHHH------hhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDI-PARLDILDTAGQEEF--SAMREQY------MRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~-~~~~~l~D~~g~~~~--~~~~~~~------~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      ..++++|+-+.....+.+.+. +  +.+|||+|..+.  ..++..+      ++++|++++|+|++++.+++.+..|...
T Consensus       224 v~~~~~tTld~~~~~i~l~~~~~--~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~i  301 (426)
T PRK11058        224 AADQLFATLDPTLRRIDVADVGE--TVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTV  301 (426)
T ss_pred             eccCCCCCcCCceEEEEeCCCCe--EEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHH
Confidence            445555555555555666553 4  456999998542  3333333      5789999999999999888887655444


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +.... ..++|+++|+||+|+.+...  . .. . ....+.+ ++++||++|.|++++++++...+..
T Consensus       302 L~el~-~~~~pvIiV~NKiDL~~~~~--~-~~-~-~~~~~~~~~v~ISAktG~GIdeL~e~I~~~l~~  363 (426)
T PRK11058        302 LEEID-AHEIPTLLVMNKIDMLDDFE--P-RI-D-RDEENKPIRVWLSAQTGAGIPLLFQALTERLSG  363 (426)
T ss_pred             HHHhc-cCCCCEEEEEEcccCCCchh--H-HH-H-HHhcCCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence            44332 24789999999999864211  1 11 1 1224556 5899999999999999999998854

>cd01889 SelB_euk SelB subfamily

Probab=99.61  E-value=1.7e-14  Score=99.76  Aligned_cols=116  Identities=16%  Similarity=0.087  Sum_probs=76.8

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC-
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV-  105 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~-  105 (159)
                      +....+.+|||||+..+........+.+|++++|+|+++.........+.  +...   .+.|+++++||+|+...... 
T Consensus        65 ~~~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~---~~~~~iiv~NK~Dl~~~~~~~  139 (192)
T cd01889          65 EENLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEI---LCKKLIVVLNKIDLIPEEERE  139 (192)
T ss_pred             ccCceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHH---cCCCEEEEEECcccCCHHHHH
Confidence            34567788999999765333333456789999999998854433322221  1222   35699999999998642221 


Q ss_pred             -CHHHHHHH-HH------HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 -SSMDAQNV-AR------QLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 -~~~~~~~~-~~------~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                       ..++..+. ..      ..+++++++||++|.|++++++.+..++...+
T Consensus       140 ~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~~~  189 (192)
T cd01889         140 RKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVLPL  189 (192)
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhcccccc
Confidence             12222221 11      13578999999999999999999999886543

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.60  E-value=2.8e-14  Score=115.76  Aligned_cols=137  Identities=18%  Similarity=0.172  Sum_probs=95.1

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCccc----------chHHH-HHHhhcCCEEEEEEECCChhhHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE----------FSAMR-EQYMRSGEGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~----------~~~~~-~~~~~~~~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      ++.++++|+.+.+...+.+++..+.  +|||||..+          |..+. ...++.+|++++|+|+++..+..+.. +
T Consensus       477 ~v~~~~gtT~d~~~~~~~~~~~~~~--liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~-i  553 (712)
T PRK09518        477 VVNDLAGTTRDPVDEIVEIDGEDWL--FIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLK-V  553 (712)
T ss_pred             ccCCCCCCCcCcceeEEEECCCEEE--EEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHH-H
Confidence            5677888888877777788888765  599999642          22221 23468899999999999988877754 3


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH-HHHHHc----CCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ-NVARQL----RIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-~~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      +..+..    .++|+++|+||+|+.+...  .+... .+...+    ..+++++||++|.|++++++.+.+.+.+.....
T Consensus       554 ~~~~~~----~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~~~~~i  627 (712)
T PRK09518        554 MSMAVD----AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALESWDQRI  627 (712)
T ss_pred             HHHHHH----cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhcccC
Confidence            344433    4689999999999864221  11111 122222    246799999999999999999998877655443


Q ss_pred             CC
Q psy11289        151 KN  152 (159)
Q Consensus       151 ~~  152 (159)
                      .+
T Consensus       628 ~T  629 (712)
T PRK09518        628 PT  629 (712)
T ss_pred             Ch
Confidence            33

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.60  E-value=4.6e-14  Score=113.64  Aligned_cols=111  Identities=23%  Similarity=0.339  Sum_probs=82.2

Q ss_pred             EEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         22 QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        22 ~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      ....++....+.||||||++.|..++..+++.+|++|+|+|+++.   .+++.+.    .+.    ..++|+|+++||+|
T Consensus       287 ~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~----~~k----~~~iPiIVViNKiD  358 (742)
T CHL00189        287 EFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAIN----YIQ----AANVPIIVAINKID  358 (742)
T ss_pred             EEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHH----HHH----hcCceEEEEEECCC
Confidence            344455567788899999999999999999999999999999874   4444332    221    25689999999999


Q ss_pred             CCCcCCCCHHHHHHH-------HHHcC--CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         99 LDHQRQVSSMDAQNV-------ARQLR--IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        99 ~~~~~~~~~~~~~~~-------~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +....   .+...+.       +..++  ++++++||++|.|+++++++++...
T Consensus       359 l~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        359 KANAN---TERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             ccccC---HHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            86422   2222221       22333  6899999999999999999998764

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.59  E-value=3.7e-14  Score=97.23  Aligned_cols=110  Identities=20%  Similarity=0.311  Sum_probs=81.0

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--  106 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--  106 (159)
                      ...+.+||+||..++...+..+++.+|++++|+|++++.+... ..++..+..    .+.|+++++||+|+.......  
T Consensus        61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~-~~~~~~~~~----~~~~i~iv~nK~D~~~~~~~~~~  135 (189)
T cd00881          61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQT-REHLRIARE----GGLPIIVAINKIDRVGEEDLEEV  135 (189)
T ss_pred             CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHH-HHHHHHHHH----CCCCeEEEEECCCCcchhcHHHH
Confidence            4567779999999988888999999999999999988665433 233333322    568999999999986532221  


Q ss_pred             HHHHHHHHHH--------------cCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        107 SMDAQNVARQ--------------LRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       107 ~~~~~~~~~~--------------~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .+......+.              ...+++++||++|.|++++++++...+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         136 LREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             HHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence            2223333332              246799999999999999999999875

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.58  E-value=2.7e-14  Score=110.17  Aligned_cols=134  Identities=19%  Similarity=0.179  Sum_probs=89.3

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchH----------H-HHHHhhcCCEEEEEEECCChhhHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA----------M-REQYMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~-~~~~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      ......++|+.+.....+..++..+.  +|||||..+...          . ...+++.+|++|+|+|++++.+..+.. 
T Consensus       199 ~~~~~~~gtt~~~~~~~~~~~~~~~~--lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~-  275 (435)
T PRK00093        199 VIVSDIAGTTRDSIDTPFERDGQKYT--LIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLR-  275 (435)
T ss_pred             eeecCCCCceEEEEEEEEEECCeeEE--EEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHH-
Confidence            34555666766666666666777765  599999643211          1 123578899999999999987766543 


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +...+.+    .++|+++++||+|+.+.... .+....+...    ..++++++||++|.|++++++.+.+......
T Consensus       276 i~~~~~~----~~~~~ivv~NK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~~~~  347 (435)
T PRK00093        276 IAGLALE----AGRALVIVVNKWDLVDEKTM-EEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYENAN  347 (435)
T ss_pred             HHHHHHH----cCCcEEEEEECccCCCHHHH-HHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHHHHc
Confidence            3333332    46899999999998632211 1111222222    2478999999999999999999887665443

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.58  E-value=8.5e-14  Score=107.41  Aligned_cols=123  Identities=20%  Similarity=0.191  Sum_probs=87.2

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCccc--------chHHHHHHhhcCCEEEEEEECCChhhHH--HHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE--------FSAMREQYMRSGEGFLLVFSVTDRNSFE--EIYKFH   76 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~s~~--~~~~~~   76 (159)
                      +..++++++.+.....+.+++.  .+.+|||||++.        +......+++++|++++|+|++++.+..  .+..|+
T Consensus        28 ~v~~~~~~t~d~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l  105 (435)
T PRK00093         28 IVADTPGVTRDRIYGEAEWLGR--EFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKIL  105 (435)
T ss_pred             eeCCCCCCcccceEEEEEECCc--EEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHH
Confidence            4566667666776777778874  466799999986        2233456678999999999998854432  233443


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..       .+.|+++|+||+|+.+.    .....++ ..+|+. ++++||++|.|+.++++++....
T Consensus       106 ~~-------~~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~~I~~~~  161 (435)
T PRK00093        106 RK-------SNKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGRGIGDLLDAILEEL  161 (435)
T ss_pred             HH-------cCCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCCCHHHHHHHHHhhC
Confidence            32       36799999999996531    1222232 355764 89999999999999999998743

>cd01895 EngA2 EngA2 subfamily

Probab=99.57  E-value=4.2e-13  Score=90.53  Aligned_cols=126  Identities=23%  Similarity=0.270  Sum_probs=82.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccc----------hH-HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF----------SA-MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----------~~-~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      +.+++........+..++..+  .+||+||..+.          .. .....+..+|++++|+|++++.+.... .++..
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~--~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~-~~~~~  108 (174)
T cd01895          32 DIAGTTRDSIDVPFEYDGKKY--TLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDL-RIAGL  108 (174)
T ss_pred             CCCCCccCceeeEEEECCeeE--EEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHH-HHHHH
Confidence            344444444455666677665  45999997433          11 112346789999999999998776543 23333


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH-HHHHHHc----CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA-QNVARQL----RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +..    .+.|+++++||+|+.+......+.. ..+.+.+    ..+++++||+++.|+.++++.+.+.
T Consensus       109 ~~~----~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         109 ILE----EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             HHh----cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            222    4679999999999875432222222 2233333    3679999999999999999998764

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.

>KOG0074|consensus

Probab=99.57  E-value=1.6e-14  Score=92.70  Aligned_cols=126  Identities=26%  Similarity=0.321  Sum_probs=96.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP   89 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p   89 (159)
                      .-.||.|.. .+.+.. ...+++.+||++|+...+..|..|+.+.|++|+|.|.+|...|+++..-+.++........+|
T Consensus        44 hltpT~GFn-~k~v~~-~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vp  121 (185)
T KOG0074|consen   44 HLTPTNGFN-TKKVEY-DGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVP  121 (185)
T ss_pred             hccccCCcc-eEEEee-cCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccc
Confidence            345676655 333333 344678889999999999999999999999999999999999998887677777766667899


Q ss_pred             EEEEEeCCCCCCcCCCCHHHHHHHHHHc--------CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         90 MLMVGNKADLDHQRQVSSMDAQNVARQL--------RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        90 ~ivv~nK~D~~~~~~~~~~~~~~~~~~~--------~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +.+.+||.|+.....+     .+.+..+        .+.+-+|||+++.|+....+|+...
T Consensus       122 vlIfankQdlltaa~~-----eeia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~sn  177 (185)
T KOG0074|consen  122 VLIFANKQDLLTAAKV-----EEIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQSN  177 (185)
T ss_pred             eeehhhhhHHHhhcch-----HHHHHhcchhhhhhceEEeeeCccccccCccCcchhhhcC
Confidence            9999999998643222     2222222        2457899999999999999998764

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.56  E-value=1.1e-13  Score=106.69  Aligned_cols=126  Identities=20%  Similarity=0.217  Sum_probs=90.9

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcc--------cchHHHHHHhhcCCEEEEEEECCChhhHHH--HHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE--------EFSAMREQYMRSGEGFLLVFSVTDRNSFEE--IYKF   75 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~--------~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~--~~~~   75 (159)
                      .+..++++++.+.....+.+++..+  .+|||||..        .+......+++.+|++++|+|+.++.+...  +..|
T Consensus        25 ~~v~~~~g~t~d~~~~~~~~~~~~~--~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~  102 (429)
T TIGR03594        25 AIVSDTPGVTRDRKYGDAEWGGREF--ILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKW  102 (429)
T ss_pred             ceecCCCCcccCceEEEEEECCeEE--EEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHH
Confidence            3566777777777777777788764  559999963        334456667899999999999987544332  3333


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +.   +    .++|+++|+||+|+.+....    ..+ +..+|+ +++++||..|.|+.++++++...+..
T Consensus       103 l~---~----~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       103 LR---K----SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             HH---H----hCCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChHHHHHHHHHhcCc
Confidence            32   2    46799999999998653321    112 345676 69999999999999999999987754

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.56  E-value=1.4e-13  Score=111.76  Aligned_cols=109  Identities=22%  Similarity=0.307  Sum_probs=79.7

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      ..+.+++..  +.||||||++.|..++...++.+|++|+|+|+++   +.+.+.+.    ..    ...++|+|+++||+
T Consensus       330 ~~v~~~~~~--ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~----~a----~~~~vPiIVviNKi  399 (787)
T PRK05306        330 YQVETNGGK--ITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAIN----HA----KAAGVPIIVAINKI  399 (787)
T ss_pred             EEEEECCEE--EEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHH----HH----HhcCCcEEEEEECc
Confidence            345556644  5669999999999999989999999999999988   44444321    11    12568999999999


Q ss_pred             CCCCcCCCCHHHHHH-------HHHHcC--CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         98 DLDHQRQVSSMDAQN-------VARQLR--IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        98 D~~~~~~~~~~~~~~-------~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+.+..   .+....       ++..++  ++++++||++|.|++++++++...
T Consensus       400 Dl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        400 DKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             cccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            986421   222211       233333  789999999999999999999864

>cd00880 Era_like Era (E

Probab=99.56  E-value=1.2e-13  Score=91.53  Aligned_cols=109  Identities=21%  Similarity=0.230  Sum_probs=77.5

Q ss_pred             eEEEEEEeCCCcccchH-------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         29 PARLDILDTAGQEEFSA-------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~-------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      ...+.+||+||...+..       ....+++.+|++++|+|.+++.+..... |......    .+.|+++|+||+|+..
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~-~~~~~~~----~~~~~ivv~nK~D~~~  118 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEK-LLELLRE----RGKPVLLVLNKIDLLP  118 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHHh----cCCeEEEEEEccccCC
Confidence            34567799999866532       3445788999999999999987776654 3333322    5789999999999865


Q ss_pred             cCCCCHHH---HHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        102 QRQVSSMD---AQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       102 ~~~~~~~~---~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ........   ........+.+++++||+++.|+.++++++.+.
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         119 EEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             hhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence            43322211   112222335789999999999999999999875

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

>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=99.55  E-value=7.1e-14  Score=89.27  Aligned_cols=84  Identities=29%  Similarity=0.521  Sum_probs=64.8

Q ss_pred             ccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH---HHHHHHHhhcCCCCC
Q psy11289         13 PTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY---KFHRQILRVKDRDEF   88 (159)
Q Consensus        13 pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~---~~~~~i~~~~~~~~~   88 (159)
                      ++.+..+ .....+......+++||++|++.+...+..++.++|++++|||+++++|++.+.   .|+..+....  .++
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~--~~~  109 (119)
T PF08477_consen   32 ETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRD--KNI  109 (119)
T ss_dssp             SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHS--SCS
T ss_pred             ccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccC--CCC
Confidence            3344444 345566777666899999999988877777799999999999999999998875   4566665543  569


Q ss_pred             cEEEEEeCCC
Q psy11289         89 PMLMVGNKAD   98 (159)
Q Consensus        89 p~ivv~nK~D   98 (159)
                      |+++||||.|
T Consensus       110 piilv~nK~D  119 (119)
T PF08477_consen  110 PIILVGNKSD  119 (119)
T ss_dssp             EEEEEEE-TC
T ss_pred             CEEEEEeccC
Confidence            9999999998

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.

>cd00066 G-alpha G protein alpha subunit

Probab=99.55  E-value=1.2e-13  Score=102.44  Aligned_cols=145  Identities=17%  Similarity=0.184  Sum_probs=106.4

Q ss_pred             ccccccccccccccceEEEEEEECC--------eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh--------
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDD--------IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR--------   66 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~--------~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~--------   66 (159)
                      +++.+.++|.||..|.+.......|        ..+.+.+||+||+...+..|..++.++++++||+|+++.        
T Consensus       126 ~~ri~~~~y~Pt~~Dil~~r~~T~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~  205 (317)
T cd00066         126 LDRISDPDYIPTEQDILRARVKTTGIVETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDE  205 (317)
T ss_pred             HHHHhCCCCCCChhHheeeecccCCeeEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCC
Confidence            3556788999998877633322222        345677799999999999999999999999999999874        


Q ss_pred             --hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc----------------CCCCHHHHHHHHHH----------cC
Q psy11289         67 --NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ----------------RQVSSMDAQNVARQ----------LR  118 (159)
Q Consensus        67 --~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~~~~~----------~~  118 (159)
                        ..+.+....+..+.......++|+++++||.|+..+                ..-+.+.+..+...          ..
T Consensus       206 ~~nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~  285 (317)
T cd00066         206 STNRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKE  285 (317)
T ss_pred             cchHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCe
Confidence              456666666677666555568999999999996211                12234455444332          12


Q ss_pred             CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        119 IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       119 ~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +.++.++|.+..++..+|+.+...+.+..
T Consensus       286 ~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         286 IYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             EEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            44678999999999999999999887765

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.54  E-value=4.9e-13  Score=101.45  Aligned_cols=137  Identities=18%  Similarity=0.174  Sum_probs=95.7

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchH----HH---HHHhhcCCEEEEEEECC---ChhhHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA----MR---EQYMRSGEGFLLVFSVT---DRNSFEEIYKFHR   77 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~~---~~~~~~~~~ii~v~d~~---~~~s~~~~~~~~~   77 (159)
                      +.+|+.|+.......+..++.. .+.|+||||..+-.+    +.   -..++.++++++|+|++   +.+.+++...|+.
T Consensus       186 vs~~p~TT~~p~~Giv~~~~~~-~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~  264 (390)
T PRK12298        186 VADYPFTTLVPNLGVVRVDDER-SFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIIN  264 (390)
T ss_pred             ccCCCCCccCcEEEEEEeCCCc-EEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHH
Confidence            4667777776655555654322 245699999854211    12   23467899999999998   4567777777877


Q ss_pred             HHHhhcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         78 QILRVKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        78 ~i~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ++..+.. ..+.|.++|+||+|+.....+ .+....+.+..+  .+++.+||+++.|++++++++.+.+.+.
T Consensus       265 eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        265 ELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             HHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhhC
Confidence            7776532 236899999999998654332 233444555544  4699999999999999999999988654

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.52  E-value=2.5e-13  Score=107.86  Aligned_cols=121  Identities=21%  Similarity=0.282  Sum_probs=87.0

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      +...++...++++||||||+.+|...+..+++.+|++++|+|+++.. ......|+..+..    .++|+++++||+|+.
T Consensus        55 ~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~-~~qT~~~l~~a~~----~~ip~IVviNKiD~~  129 (594)
T TIGR01394        55 KNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGP-MPQTRFVLKKALE----LGLKPIVVINKIDRP  129 (594)
T ss_pred             eeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCC-cHHHHHHHHHHHH----CCCCEEEEEECCCCC
Confidence            33334444466778999999999988999999999999999998742 3344556655544    467999999999986


Q ss_pred             CcCCC-CHHHHHHHHH-------HcCCcEEEeCCCCCC----------CHHHHHHHHHHHHHhc
Q psy11289        101 HQRQV-SSMDAQNVAR-------QLRIPYIECSAKVRI----------NVDQAFHELVRIVLLH  146 (159)
Q Consensus       101 ~~~~~-~~~~~~~~~~-------~~~~~~~~~sa~~~~----------~i~~~~~~l~~~~~~~  146 (159)
                      +.+.. ..++...+..       ++.++++.+||++|.          |+..+|+.++..+...
T Consensus       130 ~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       130 SARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             CcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            53311 1233333332       235789999999995          7999999998877544

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.51  E-value=9.4e-13  Score=106.98  Aligned_cols=127  Identities=17%  Similarity=0.151  Sum_probs=84.3

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCccc--------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE--------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      +++++++++.+........++..+  .+|||||.+.        +......+++.+|++|+|+|+++.-...+ ..|...
T Consensus       302 iv~~~pGvT~d~~~~~~~~~~~~~--~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d-~~i~~~  378 (712)
T PRK09518        302 VVEDTPGVTRDRVSYDAEWAGTDF--KLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTD-ERIVRM  378 (712)
T ss_pred             eecCCCCeeEEEEEEEEEECCEEE--EEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHH
Confidence            345555555555566666677665  5599999763        23345567889999999999987422211 133333


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +..    .++|+++|+||+|+....    .....+. .++. ..+++||++|.|+++++++++..+..
T Consensus       379 Lr~----~~~pvIlV~NK~D~~~~~----~~~~~~~-~lg~~~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        379 LRR----AGKPVVLAVNKIDDQASE----YDAAEFW-KLGLGEPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             HHh----cCCCEEEEEECcccccch----hhHHHHH-HcCCCCeEEEECCCCCCchHHHHHHHHhccc
Confidence            322    578999999999985421    1122221 2343 36799999999999999999988754

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.50  E-value=2.9e-13  Score=103.49  Aligned_cols=109  Identities=19%  Similarity=0.272  Sum_probs=77.5

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh----hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN----SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~----s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      ...+.+||+||+++|...+......+|++++|+|++++.    +.+++.    .+ ...  ...|+++++||+|+.+...
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~----~l-~~~--gi~~iIVvvNK~Dl~~~~~  151 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLM----AL-EII--GIKNIVIVQNKIDLVSKEK  151 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHH----HH-HHc--CCCeEEEEEEccccCCHHH
Confidence            356778999999999887777788899999999999643    333332    22 221  2247899999999865322


Q ss_pred             C--CHHHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        105 V--SSMDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       105 ~--~~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .  ..++...+.+..   +++++++||++|.|++++++++...+.
T Consensus       152 ~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       152 ALENYEEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHHHHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            1  123333344332   578999999999999999999988654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.49  E-value=5.6e-13  Score=105.56  Aligned_cols=104  Identities=16%  Similarity=0.242  Sum_probs=74.9

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC----
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ----  104 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~----  104 (159)
                      +.||||||++.|..++..+++.+|++++|+|+++   +.+++.+..    +..    .++|+++++||+|+.....    
T Consensus        71 l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~----l~~----~~vpiIVv~NK~Dl~~~~~~~~~  142 (590)
T TIGR00491        71 LLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM----YKTPFVVAANKIDRIPGWRSHEG  142 (590)
T ss_pred             EEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHH----HHH----cCCCEEEEEECCCccchhhhccC
Confidence            6789999999999999999999999999999987   556555431    111    4689999999999853211    


Q ss_pred             CC--------HHH------------HHHHHH------------Hc--CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        105 VS--------SMD------------AQNVAR------------QL--RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       105 ~~--------~~~------------~~~~~~------------~~--~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .+        ...            ..++++            .+  .++++++||++|.|+++++.++....
T Consensus       143 ~~f~e~sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       143 RPFMESFSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             chHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence            00        000            011111            11  26799999999999999999887544

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.

>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=99.49  E-value=5.3e-13  Score=92.02  Aligned_cols=112  Identities=20%  Similarity=0.285  Sum_probs=76.8

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC-
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV-  105 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~-  105 (159)
                      .....+.++|+||+.+|.......++.+|++|+|+|+.+.-.... ...+..+..    .++|++++.||+|+.+.+.. 
T Consensus        67 ~~~~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~-~~~l~~~~~----~~~p~ivvlNK~D~~~~~~~~  141 (188)
T PF00009_consen   67 ENNRKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQT-EEHLKILRE----LGIPIIVVLNKMDLIEKELEE  141 (188)
T ss_dssp             ESSEEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHH-HHHHHHHHH----TT-SEEEEEETCTSSHHHHHH
T ss_pred             ccccceeecccccccceeecccceecccccceeeeeccccccccc-ccccccccc----cccceEEeeeeccchhhhHHH
Confidence            334456669999999998878888899999999999987644322 222233323    56789999999998721110 


Q ss_pred             CHHHHH-HHHHHcC------CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        106 SSMDAQ-NVARQLR------IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       106 ~~~~~~-~~~~~~~------~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..++.. .+.+..+      ++++++||++|.|+.++++.+.+.+
T Consensus       142 ~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  142 IIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             HHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             HHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence            011111 3333332      5799999999999999999988764

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 ....

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.48  E-value=1.1e-12  Score=104.67  Aligned_cols=110  Identities=20%  Similarity=0.228  Sum_probs=78.2

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDH  101 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~  101 (159)
                      ++..  +.+|||||+++|.......+.++|++++|+|+++   +.+.+.+.     +...   .++| +++|+||+|+.+
T Consensus        49 ~g~~--i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~eg~~~qT~ehl~-----il~~---lgi~~iIVVlNKiDlv~  118 (614)
T PRK10512         49 DGRV--LGFIDVPGHEKFLSNMLAGVGGIDHALLVVACDDGVMAQTREHLA-----ILQL---TGNPMLTVALTKADRVD  118 (614)
T ss_pred             CCcE--EEEEECCCHHHHHHHHHHHhhcCCEEEEEEECCCCCcHHHHHHHH-----HHHH---cCCCeEEEEEECCccCC
Confidence            4555  5669999999997766777889999999999987   44444432     2222   2345 579999999865


Q ss_pred             cCCCC--HHHHHHHHHHcC---CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        102 QRQVS--SMDAQNVARQLR---IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       102 ~~~~~--~~~~~~~~~~~~---~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +..+.  .++...+....+   .+++++||++|.|++++++.+......
T Consensus       119 ~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~~~~  167 (614)
T PRK10512        119 EARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQLPER  167 (614)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHhhcc
Confidence            33221  233444444444   679999999999999999999875543

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.48  E-value=5.9e-13  Score=100.49  Aligned_cols=148  Identities=23%  Similarity=0.246  Sum_probs=109.8

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH-----------HHHHhhcCCEEEEEEECCChhhHHHH
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM-----------REQYMRSGEGFLLVFSVTDRNSFEEI   72 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-----------~~~~~~~~~~ii~v~d~~~~~s~~~~   72 (159)
                      ++..+.+.++|+.+.....++.+++++.+  .||+|..+-...           ....+..++.+++|.|++.+-+-++.
T Consensus       202 eR~Iv~~~aGTTRD~I~~~~e~~~~~~~l--iDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~  279 (444)
T COG1160         202 ERVIVSDIAGTTRDSIDIEFERDGRKYVL--IDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDL  279 (444)
T ss_pred             ceEEecCCCCccccceeeeEEECCeEEEE--EECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHH
Confidence            55677888999999999999999999887  999998653222           22336789999999999998776653


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHH-HHHHc----CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         73 YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQN-VARQL----RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        73 ~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                           .+..+....+.+++++.||.|+.+.+..+.++.+. +...+    ..+.+.+||++|.++.++|+.+........
T Consensus       280 -----~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~~~  354 (444)
T COG1160         280 -----RIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYECAT  354 (444)
T ss_pred             -----HHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHHhc
Confidence                 23333333678999999999987654444444322 22222    267999999999999999999998888777


Q ss_pred             ccCCCCccccc
Q psy11289        148 KQCKNSTVYRY  158 (159)
Q Consensus       148 ~~~~~~~~~~~  158 (159)
                      .+-.++.++++
T Consensus       355 ~ri~Ts~LN~~  365 (444)
T COG1160         355 RRISTSLLNRV  365 (444)
T ss_pred             cccCHHHHHHH
Confidence            77766666554

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.48  E-value=5.5e-13  Score=102.05  Aligned_cols=109  Identities=18%  Similarity=0.269  Sum_probs=74.4

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh----hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR----NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      .++.||||||+++|....-.....+|++++|+|++++    .+.+.+.    .+ ...  ...|+++|+||+|+.+....
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~----~l-~~~--~i~~iiVVlNK~Dl~~~~~~  157 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLM----AL-DII--GIKNIVIVQNKIDLVSKERA  157 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHH----HH-HHc--CCCcEEEEEEeeccccchhH
Confidence            5678899999988765444445667999999999964    3333332    12 211  22478999999998653322


Q ss_pred             --CHHHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        106 --SSMDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       106 --~~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                        ..++...+++..   +++++++||++|.|++++++.+...+..
T Consensus       158 ~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        158 LENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             HHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence              123333444332   4789999999999999999999887643

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.48  E-value=2e-12  Score=105.25  Aligned_cols=127  Identities=13%  Similarity=0.204  Sum_probs=91.2

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH----------HHHHh--hcCCEEEEEEECCChhhHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM----------REQYM--RSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~----------~~~~~--~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      ...+++.++-+.....+..++.+  +++||+||..++...          ...++  ..+|++++|+|.++.+..   ..
T Consensus        29 ~vgn~pGvTve~k~g~~~~~~~~--i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~---l~  103 (772)
T PRK09554         29 RVGNWAGVTVERKEGQFSTTDHQ--VTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERN---LY  103 (772)
T ss_pred             ccCCCCCceEeeEEEEEEcCceE--EEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhh---HH
Confidence            34566655555444445545555  556999999766321          22333  478999999999986543   23


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      |..++.+    .++|+++++||+|+.+++.+. .+...+++.+|++++++||++|.|++++.+.+....
T Consensus       104 l~~ql~e----~giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        104 LTLQLLE----LGIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             HHHHHHH----cCCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhh
Confidence            4444443    468999999999987666653 456788889999999999999999999999887754

>PRK10218 GTP-binding protein; Provisional

Probab=99.47  E-value=2.6e-12  Score=102.08  Aligned_cols=122  Identities=22%  Similarity=0.221  Sum_probs=86.2

Q ss_pred             EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         20 TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        20 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      .+...++...+++++|||||+.+|...+..+++.+|++++|+|+++....+ ...++.....    .++|.++++||+|+
T Consensus        58 ~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~q-t~~~l~~a~~----~gip~IVviNKiD~  132 (607)
T PRK10218         58 AKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQ-TRFVTKKAFA----YGLKPIVVINKVDR  132 (607)
T ss_pred             EEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHH-HHHHHHHHHH----cCCCEEEEEECcCC
Confidence            455555556677888999999999999999999999999999998753222 2333333333    46799999999998


Q ss_pred             CCcCCC-CHHHHHHHHH-------HcCCcEEEeCCCCCC----------CHHHHHHHHHHHHHhc
Q psy11289        100 DHQRQV-SSMDAQNVAR-------QLRIPYIECSAKVRI----------NVDQAFHELVRIVLLH  146 (159)
Q Consensus       100 ~~~~~~-~~~~~~~~~~-------~~~~~~~~~sa~~~~----------~i~~~~~~l~~~~~~~  146 (159)
                      ...+.- ..++...+..       +..+|++.+||++|.          |+..+++.++..+...
T Consensus       133 ~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        133 PGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             CCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCC
Confidence            643211 1233333332       234789999999998          5888888888776544

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.46  E-value=5.2e-13  Score=102.81  Aligned_cols=108  Identities=19%  Similarity=0.160  Sum_probs=72.9

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC-
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADLDHQRQ-  104 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~-  104 (159)
                      .....+.|||+||+++|.......+..+|++++|+|+++.+++.... .+...+....  ...|+++++||+|+.+... 
T Consensus        82 ~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~--~~~~iIVviNK~Dl~~~~~~  159 (426)
T TIGR00483        82 TDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTL--GINQLIVAINKMDSVNYDEE  159 (426)
T ss_pred             cCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHc--CCCeEEEEEEChhccCccHH
Confidence            33456778999999988665666678999999999999885432211 1111222222  2357999999999863211 


Q ss_pred             ---CCHHHHHHHHHHcC-----CcEEEeCCCCCCCHHHHH
Q psy11289        105 ---VSSMDAQNVARQLR-----IPYIECSAKVRINVDQAF  136 (159)
Q Consensus       105 ---~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  136 (159)
                         ...++...+++..+     ++++++||++|.|+.+++
T Consensus       160 ~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       160 EFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence               11344556666665     569999999999998743

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.46  E-value=4.3e-12  Score=87.71  Aligned_cols=131  Identities=15%  Similarity=0.174  Sum_probs=81.0

Q ss_pred             cccccccccccceEEEE-EEECCeeEEEEEEeCCCc----------ccchHHHHHHhhcC---CEEEEEEECCChhhHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQ-CVIDDIPARLDILDTAGQ----------EEFSAMREQYMRSG---EGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~-~~~~~~~~~~~l~D~~g~----------~~~~~~~~~~~~~~---~~ii~v~d~~~~~s~~~   71 (159)
                      .|...+.|+.+...... ... +  ..+.||||||.          +++..+...+++.+   +++++++|.+++.+...
T Consensus        48 ~~~~~~~~~~~~t~~~~~~~~-~--~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~  124 (196)
T PRK00454         48 KNLARTSKTPGRTQLINFFEV-N--DKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELD  124 (196)
T ss_pred             CCcccccCCCCceeEEEEEec-C--CeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHH
Confidence            35556666766332211 122 2  45778999994          34445555666544   67888899887644432


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .  ++......   .+.|+++++||+|+.......  .+...........+++++||+++.|+.++++.+...+.
T Consensus       125 ~--~i~~~l~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        125 L--QMIEWLKE---YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             H--HHHHHHHH---cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            1  11111121   467999999999986432211  12233333333578999999999999999999887653

>PRK00089 era GTPase Era; Reviewed

Probab=99.46  E-value=2.7e-12  Score=94.26  Aligned_cols=129  Identities=17%  Similarity=0.157  Sum_probs=81.7

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccch--------HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS--------AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~--------~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ..+.|+..........++  ..+.+|||||.....        ......+.++|++++|+|++++.+  ....++.....
T Consensus        35 ~~~~tt~~~i~~i~~~~~--~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~--~~~~~i~~~l~  110 (292)
T PRK00089         35 PKPQTTRHRIRGIVTEDD--AQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIG--PGDEFILEKLK  110 (292)
T ss_pred             CCCCcccccEEEEEEcCC--ceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCC--hhHHHHHHHHh
Confidence            334454444433333333  456679999975432        223345678999999999988322  11222222222


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                         ..+.|+++|+||+|+.............+.+..+ .+++++||+++.|++++++++...+..
T Consensus       111 ---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~~  172 (292)
T PRK00089        111 ---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLPE  172 (292)
T ss_pred             ---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCCC
Confidence               2468999999999986322222333444554444 569999999999999999999987743

>smart00275 G_alpha G protein alpha subunit

Probab=99.45  E-value=1.7e-12  Score=97.12  Aligned_cols=142  Identities=16%  Similarity=0.171  Sum_probs=100.9

Q ss_pred             cccccccccccccceEEE----------EEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh-------
Q psy11289          4 ESYFVTDYDPTIEDSYTK----------QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR-------   66 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~----------~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~-------   66 (159)
                      ++-+.++|.||..|....          .+.+++  +.+.+||+||+...++.|..++.++++++||+|+++-       
T Consensus       150 ~ri~~~~y~Pt~~Dil~~r~~T~Gi~~~~f~~~~--~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed  227 (342)
T smart00275      150 DRIGDPDYVPTEQDILRSRVPTTGIQETAFIVKK--LFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEED  227 (342)
T ss_pred             HHHhCCCCCCCHHHhhheeCCccceEEEEEEECC--eEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhcc
Confidence            445567888887654311          122333  3456799999999999999999999999999999973       


Q ss_pred             ---hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc---------------CCCCHHHHHHHHHH-----c------
Q psy11289         67 ---NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ---------------RQVSSMDAQNVARQ-----L------  117 (159)
Q Consensus        67 ---~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~---------------~~~~~~~~~~~~~~-----~------  117 (159)
                         ..+.+....+..+.+.....++|+++++||.|+..+               ..-+.+.+..+...     .      
T Consensus       228 ~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r  307 (342)
T smart00275      228 ESTNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRK  307 (342)
T ss_pred             CcchHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCc
Confidence               456666667777776555568999999999997311               11233444443221     1      


Q ss_pred             CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        118 RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       118 ~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+-++.+||.+..++..+|+.+...+.+..
T Consensus       308 ~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~  337 (342)
T smart00275      308 SIYHHFTCATDTRNIRVVFDAVKDIILQRN  337 (342)
T ss_pred             eEEEEEeeecccHHHHHHHHHHHHHHHHHH
Confidence            134688899999999999999988887655

Subunit of G proteins that contains the guanine nucleotide binding site

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.44  E-value=1.1e-12  Score=101.07  Aligned_cols=107  Identities=18%  Similarity=0.153  Sum_probs=69.3

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC---
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ---  104 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~---  104 (159)
                      ...++.||||||+++|.......++.+|++++|+|++++.++.....+...+....  ...|+++++||+|+.+...   
T Consensus        82 ~~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK~Dl~~~~~~~~  159 (425)
T PRK12317         82 DKYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINKMDAVNYDEKRY  159 (425)
T ss_pred             CCeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEccccccccHHHH
Confidence            34456779999999886655555788999999999987322222222222222222  2246899999999864211   


Q ss_pred             -CCHHHHHHHHHHcC-----CcEEEeCCCCCCCHHHHH
Q psy11289        105 -VSSMDAQNVARQLR-----IPYIECSAKVRINVDQAF  136 (159)
Q Consensus       105 -~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  136 (159)
                       ...++...+++..+     ++++++||++|.|+++..
T Consensus       160 ~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        160 EEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence             11234455555555     469999999999998744

>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=99.43  E-value=1.4e-11  Score=87.68  Aligned_cols=127  Identities=24%  Similarity=0.195  Sum_probs=84.2

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccch-------HHHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHH-
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS-------AMREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQ-   78 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-------~~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~-   78 (159)
                      ..+|+.|+-+.....+.+++..  +++||+||..+..       ......++++|++++|+|+++++ ..+.+...+.. 
T Consensus        27 v~~~~~tT~~~~~g~~~~~~~~--i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V~D~t~~~~~~~~~~~~l~~~  104 (233)
T cd01896          27 VAAYEFTTLTCVPGVLEYKGAK--IQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMVLDATKPEGHREILERELEGV  104 (233)
T ss_pred             ccCCCCccccceEEEEEECCeE--EEEEECCCcccccccchhHHHHHHHhhccCCEEEEEecCCcchhHHHHHHHHHHHc
Confidence            4556666655555566667655  5669999985432       22345688999999999998865 33333222211 


Q ss_pred             ---------------------------------------HHh-h-----------------------cCCCCCcEEEEEe
Q psy11289         79 ---------------------------------------ILR-V-----------------------KDRDEFPMLMVGN   95 (159)
Q Consensus        79 ---------------------------------------i~~-~-----------------------~~~~~~p~ivv~n   95 (159)
                                                             +++ +                       .....+|+++|+|
T Consensus       105 gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~~~~~~~~~~~~y~p~iiV~N  184 (233)
T cd01896         105 GIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDITVDDLIDVIEGNRVYIPCLYVYN  184 (233)
T ss_pred             CceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHHHHHHHHhCCceEeeEEEEEE
Confidence                                                   110 0                       0112469999999


Q ss_pred             CCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         96 KADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        96 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      |+|+..     .++...++..  .+++++||++|.|++++|+.+.+.+
T Consensus       185 K~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         185 KIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            999853     4455555543  4689999999999999999998865

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.

>cd04163 Era Era subfamily

Probab=99.43  E-value=1e-11  Score=82.98  Aligned_cols=109  Identities=17%  Similarity=0.128  Sum_probs=73.3

Q ss_pred             eEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         29 PARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ...+.+||+||......        .....+..+|++++|+|++++.+.. ...+...+..    .+.|+++|+||+|+.
T Consensus        50 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~-~~~~~~~~~~----~~~~~iiv~nK~Dl~  124 (168)
T cd04163          50 DAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEG-DEFILELLKK----SKTPVILVLNKIDLV  124 (168)
T ss_pred             CeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCch-HHHHHHHHHH----hCCCEEEEEEchhcc
Confidence            45567799999764332        2344578899999999999872211 1222333333    357999999999986


Q ss_pred             CcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        101 HQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .......+....++...+ .+++++|++++.|++++++.+.+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         125 KDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             ccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence            422222333344444443 679999999999999999998764

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.42  E-value=4.1e-12  Score=89.01  Aligned_cols=108  Identities=19%  Similarity=0.110  Sum_probs=69.2

Q ss_pred             EEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         22 QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        22 ~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      .+..++.+  +.||||||+++|...+...++.+|++++|+|++++..-.. .... .+....  ...++|+|+||+|+..
T Consensus        71 ~~~~~~~~--~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~-~~~~~~--~~~~iIvviNK~D~~~  144 (208)
T cd04166          71 YFSTPKRK--FIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHS-YILSLL--GIRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEecCCce--EEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHH-HHHHHc--CCCcEEEEEEchhccc
Confidence            34445555  4569999999887666667889999999999987532211 1111 122221  1235788999999864


Q ss_pred             cCCC----CHHHHHHHHHHcCC---cEEEeCCCCCCCHHHH
Q psy11289        102 QRQV----SSMDAQNVARQLRI---PYIECSAKVRINVDQA  135 (159)
Q Consensus       102 ~~~~----~~~~~~~~~~~~~~---~~~~~sa~~~~~i~~~  135 (159)
                      ....    ..++...+++.+++   +++++||++|.|+.+.
T Consensus       145 ~~~~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         145 YSEEVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            2211    11233455566664   4899999999998753

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.41  E-value=4.6e-12  Score=86.67  Aligned_cols=119  Identities=13%  Similarity=0.184  Sum_probs=71.2

Q ss_pred             ccccccccccceE-EEEEEECCeeEEEEEEeCCCcc----------cchHHHHHHhhc---CCEEEEEEECCChhhHHHH
Q psy11289          7 FVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQE----------EFSAMREQYMRS---GEGFLLVFSVTDRNSFEEI   72 (159)
Q Consensus         7 f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~----------~~~~~~~~~~~~---~~~ii~v~d~~~~~s~~~~   72 (159)
                      +...+.++.+... ......++   .+.+|||||..          .+..+...+++.   ++++++|+|++++-+....
T Consensus        43 ~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~  119 (179)
T TIGR03598        43 KLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDL  119 (179)
T ss_pred             CcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHH
Confidence            3444555555332 22223333   46779999952          344444556553   5899999999886554443


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC--CHHHHHHHHHHcC--CcEEEeCCCCCCCHH
Q psy11289         73 YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV--SSMDAQNVARQLR--IPYIECSAKVRINVD  133 (159)
Q Consensus        73 ~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~--~~~~~~sa~~~~~i~  133 (159)
                      . ++..+..    .+.|+++++||+|+......  ..++.+......+  .+++++||++|.|++
T Consensus       120 ~-~~~~~~~----~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       120 E-MLEWLRE----RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             H-HHHHHHH----cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            2 2222222    46899999999998643211  1233344444443  479999999999973

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.

>KOG0462|consensus

Probab=99.41  E-value=3.1e-12  Score=98.23  Aligned_cols=120  Identities=22%  Similarity=0.269  Sum_probs=91.3

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      +|..+.++++||||+.+|....+..+.-++|+|+|+|++..-.-+....++..+.     .+..+|.|.||+|++..+  
T Consensus       121 ~~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe-----~~L~iIpVlNKIDlp~ad--  193 (650)
T KOG0462|consen  121 DGQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE-----AGLAIIPVLNKIDLPSAD--  193 (650)
T ss_pred             cCCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH-----cCCeEEEeeeccCCCCCC--
Confidence            5888999999999999998888888899999999999998655555544433331     466789999999997644  


Q ss_pred             CHHHHHH-HHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCCC
Q psy11289        106 SSMDAQN-VARQL---RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS  153 (159)
Q Consensus       106 ~~~~~~~-~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~  153 (159)
                       ++.... +.+-+   .-+++.+||++|.|+.++++++++.+...+...+.+
T Consensus       194 -pe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVPpP~~~~d~p  244 (650)
T KOG0462|consen  194 -PERVENQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVPPPKGIRDAP  244 (650)
T ss_pred             -HHHHHHHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhCCCCCCCCCcc
Confidence             233322 22223   345999999999999999999999987766655544

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.38  E-value=3.2e-12  Score=90.20  Aligned_cols=108  Identities=15%  Similarity=0.148  Sum_probs=67.4

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhh---H---HHHHHHHHHHHhhcCCCCCcEEEEE
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS---F---EEIYKFHRQILRVKDRDEFPMLMVG   94 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s---~---~~~~~~~~~i~~~~~~~~~p~ivv~   94 (159)
                      ..+..++.+  +.+|||||+.+|...+...++.+|++++|+|++++..   +   ......+... ...  ...|+++++
T Consensus        70 ~~~~~~~~~--i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~iiivv  144 (219)
T cd01883          70 AKFETEKYR--FTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLA-RTL--GVKQLIVAV  144 (219)
T ss_pred             EEEeeCCeE--EEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHH-HHc--CCCeEEEEE
Confidence            344445544  5669999998877666666788999999999998521   1   1111212222 221  236899999


Q ss_pred             eCCCCCCc--CCCCH----HHHHHHHHHcC-----CcEEEeCCCCCCCHH
Q psy11289         95 NKADLDHQ--RQVSS----MDAQNVARQLR-----IPYIECSAKVRINVD  133 (159)
Q Consensus        95 nK~D~~~~--~~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~  133 (159)
                      ||+|+...  .....    ++...+.+..+     ++++++||++|.|++
T Consensus       145 NK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         145 NKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             EccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            99998632  11101    12222334443     569999999999987

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.37  E-value=1.4e-11  Score=97.97  Aligned_cols=104  Identities=20%  Similarity=0.267  Sum_probs=74.2

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC---
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV---  105 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~---  105 (159)
                      +.||||||++.|..++...++.+|++++|+|+++   +.+++.+..    +..    .++|+++++||+|+......   
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~----~~vpiIvviNK~D~~~~~~~~~~  144 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----LKR----RKTPFVVAANKIDRIPGWKSTED  144 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH----cCCCEEEEEECcCCchhhhhhcC
Confidence            5779999999999988888899999999999997   666665532    111    46899999999998521110   


Q ss_pred             -CH--------HH-----------HHHHHHHc---------------CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        106 -SS--------MD-----------AQNVARQL---------------RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       106 -~~--------~~-----------~~~~~~~~---------------~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                       ..        ..           ........               .++++++||++|.|++++++.+...+
T Consensus       145 ~~~~e~~~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        145 APFLESIEKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             chHHHHHhhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence             00        00           00111111               25689999999999999998887543

>cd04167 Snu114p Snu114p subfamily

Probab=99.37  E-value=9.3e-12  Score=87.48  Aligned_cols=70  Identities=23%  Similarity=0.353  Sum_probs=55.5

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ++..+.+.+|||||+.+|......++..+|++++|+|+++..+... ..|+.....    .++|+++++||+|+.
T Consensus        67 ~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~----~~~p~iiviNK~D~~  136 (213)
T cd04167          67 KGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL----EGLPIVLVINKIDRL  136 (213)
T ss_pred             CCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECcccC
Confidence            3567889999999999998888888999999999999988766533 344444322    358999999999974

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.36  E-value=1.7e-11  Score=92.66  Aligned_cols=125  Identities=18%  Similarity=0.143  Sum_probs=92.2

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccch--H-------HHHHHhhcCCEEEEEEECCChhhHH--HHH
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS--A-------MREQYMRSGEGFLLVFSVTDRNSFE--EIY   73 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~--~-------~~~~~~~~~~~ii~v~d~~~~~s~~--~~~   73 (159)
                      ...++++++++.|.......+.+..+.+  .||+|.+...  .       ....-+..||++|||+|....-+-.  .+.
T Consensus        28 ~AIV~D~pGvTRDr~y~~~~~~~~~f~l--IDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia  105 (444)
T COG1160          28 IAIVSDTPGVTRDRIYGDAEWLGREFIL--IDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIA  105 (444)
T ss_pred             eeEeecCCCCccCCccceeEEcCceEEE--EECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH
Confidence            4568899999999998888998888655  9999997432  1       2334468999999999998743322  222


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         74 KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        74 ~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .|+    .   ..++|+++|+||+|...     .++...-...+|+ ..+.+||..|.|+.+++++++..+
T Consensus       106 ~~L----r---~~~kpviLvvNK~D~~~-----~e~~~~efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l  164 (444)
T COG1160         106 KIL----R---RSKKPVILVVNKIDNLK-----AEELAYEFYSLGFGEPVPISAEHGRGIGDLLDAVLELL  164 (444)
T ss_pred             HHH----H---hcCCCEEEEEEcccCch-----hhhhHHHHHhcCCCCceEeehhhccCHHHHHHHHHhhc
Confidence            332    2   15689999999999642     2222333345675 499999999999999999999987

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.35  E-value=1.2e-11  Score=93.79  Aligned_cols=121  Identities=20%  Similarity=0.243  Sum_probs=93.2

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      +|..+.++|+||||+-+|.-.....+.-|-|.|+|+|++..-.-+.+...+..+.     .+..+|-|.||+|++..+. 
T Consensus        72 ~g~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle-----~~LeIiPViNKIDLP~Adp-  145 (603)
T COG0481          72 DGETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE-----NNLEIIPVLNKIDLPAADP-  145 (603)
T ss_pred             CCCEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHH-----cCcEEEEeeecccCCCCCH-
Confidence            6788999999999999987666777788999999999998755555554443332     4567888999999975332 


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHHHhccccCCCC
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIVLLHTKQCKNS  153 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~  153 (159)
                       .....+...-.|++   .+.|||++|.||+++++.++..+-..+.....+
T Consensus       146 -ervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~g~~~~p  195 (603)
T COG0481         146 -ERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIPPPKGDPDAP  195 (603)
T ss_pred             -HHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCCCCCCCCCCc
Confidence             33445566667875   799999999999999999999887776555443

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.35  E-value=5.1e-11  Score=85.00  Aligned_cols=72  Identities=21%  Similarity=0.295  Sum_probs=55.2

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .++...+++.+|||||+.+|...+..+++.+|++++|+|.++.... ....++..+..    .++|.++++||+|+.
T Consensus        58 ~~~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~----~~~P~iivvNK~D~~  129 (237)
T cd04168          58 SFQWEDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQA-QTRILWRLLRK----LNIPTIIFVNKIDRA  129 (237)
T ss_pred             EEEECCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH----cCCCEEEEEECcccc
Confidence            3333445677799999999988889999999999999999986443 33444444433    468999999999984

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.34  E-value=4.8e-11  Score=90.53  Aligned_cols=131  Identities=23%  Similarity=0.248  Sum_probs=97.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHH--------HHHhhcCCEEEEEEECCChhhHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMR--------EQYMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~--------~~~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      -++..+++.++|+.|.....+.++|.++++  .||+|........        ...++.||.+++|+|.+.+.+-.+.. 
T Consensus       240 ~d~AIVTdI~GTTRDviee~i~i~G~pv~l--~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~-  316 (454)
T COG0486         240 RDRAIVTDIAGTTRDVIEEDINLNGIPVRL--VDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLA-  316 (454)
T ss_pred             CCceEecCCCCCccceEEEEEEECCEEEEE--EecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHH-
Confidence            356788999999999999999999999877  9999986544332        23478999999999999963332221 


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                          +.. ....+.|+++|.||.|+........     .....+.+++.+|+++|.|++.+.+.+.+.+...
T Consensus       317 ----~~~-~~~~~~~~i~v~NK~DL~~~~~~~~-----~~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         317 ----LIE-LLPKKKPIIVVLNKADLVSKIELES-----EKLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             ----HHH-hcccCCCEEEEEechhcccccccch-----hhccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence                111 1225789999999999976443211     1112345799999999999999999999877665

>KOG1707|consensus

Probab=99.34  E-value=3.9e-12  Score=98.20  Aligned_cols=141  Identities=23%  Similarity=0.328  Sum_probs=99.8

Q ss_pred             ccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHhh
Q psy11289          5 SYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILRV   82 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~~   82 (159)
                      ..|+++-+|-..... ...++.+..+  +.+.|++..+.-.-.....++.||++.++|+.+++++++.+. .|++.+.+.
T Consensus        32 eef~~~VP~rl~~i~IPadvtPe~vp--t~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~  109 (625)
T KOG1707|consen   32 EEFVDAVPRRLPRILIPADVTPENVP--TSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQL  109 (625)
T ss_pred             hhccccccccCCccccCCccCcCcCc--eEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcc
Confidence            345554444433221 3333434444  556999876665555677889999999999999999999998 899999887


Q ss_pred             cCC-CCCcEEEEEeCCCCCCcCCCCHHH-HHHHHHHc-CCc-EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDR-DEFPMLMVGNKADLDHQRQVSSMD-AQNVARQL-RIP-YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~-~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~-~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+. .++|+|+||||.|.......+.+. ...+-.++ .+. +++|||++..++.++|.-..+++....
T Consensus       110 ~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqKaVihPt  178 (625)
T KOG1707|consen  110 FGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQKAVIHPT  178 (625)
T ss_pred             cCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheeeccC
Confidence            643 478999999999986654443332 22222222 233 899999999999999999988877654

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.32  E-value=3.9e-11  Score=99.80  Aligned_cols=104  Identities=21%  Similarity=0.319  Sum_probs=73.5

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH-
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS-  107 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~-  107 (159)
                      +.||||||++.|..+....+..+|++++|+|+++   +.+++.+.    .+..    .++|+++++||+|+......+. 
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~----~lk~----~~iPiIVViNKiDL~~~~~~~~~  599 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAIN----ILRQ----YKTPFVVAANKIDLIPGWNISED  599 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHH----HHHH----cCCCEEEEEECCCCccccccccc
Confidence            6779999999998888888889999999999987   55555443    2222    3579999999999854222110 


Q ss_pred             -----------HHH-HHH----------HHHc---------------CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        108 -----------MDA-QNV----------ARQL---------------RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       108 -----------~~~-~~~----------~~~~---------------~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                                 +.. .++          ..+.               .++++++||++|.|+++++..+..+.
T Consensus       600 ~~~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        600 EPFLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence                       000 011          0111               25799999999999999998876543

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.30  E-value=1.1e-10  Score=78.21  Aligned_cols=128  Identities=15%  Similarity=0.218  Sum_probs=78.4

Q ss_pred             ccccccccccccceE-EEEEEECCeeEEEEEEeCCCcc----------cchHHHHHHhh---cCCEEEEEEECCChhh--
Q psy11289          5 SYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQE----------EFSAMREQYMR---SGEGFLLVFSVTDRNS--   68 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~----------~~~~~~~~~~~---~~~~ii~v~d~~~~~s--   68 (159)
                      +.+.+...++.+... ...+..++   .+.+||+||..          .+......++.   +.+++++++|.++..+  
T Consensus        22 ~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~   98 (170)
T cd01876          22 RKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEI   98 (170)
T ss_pred             CCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHh
Confidence            345555666665332 33333333   56779999953          23444455554   4578999999987632  


Q ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHH--HcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         69 FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVAR--QLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        69 ~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~--~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...+..|+..       .+.|+++++||+|+.......  ........+  ....+++++||+++.|+.++++++.+.
T Consensus        99 ~~~~~~~l~~-------~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876          99 DLEMLDWLEE-------LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             HHHHHHHHHH-------cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            2333344432       247999999999985322211  111222222  233579999999999999999999875

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.29  E-value=1.9e-10  Score=81.42  Aligned_cols=104  Identities=17%  Similarity=0.143  Sum_probs=67.3

Q ss_pred             EEEEEeCCCcccchHHHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         31 RLDILDTAGQEEFSAMREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      .+.+.|+||+++|.......+  ..+|++++|+|+++...-.. ..++..+..    .++|+++|.||+|+.....+. +
T Consensus        85 ~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d-~~~l~~l~~----~~ip~ivvvNK~D~~~~~~~~-~  158 (224)
T cd04165          85 LVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMT-KEHLGLALA----LNIPVFVVVTKIDLAPANILQ-E  158 (224)
T ss_pred             EEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHH-HHHHHHHHH----cCCCEEEEEECccccCHHHHH-H
Confidence            355699999998865443334  36899999999987543221 233333332    467999999999985432221 1


Q ss_pred             HHHHHHHHc-----------------------------CCcEEEeCCCCCCCHHHHHHHHH
Q psy11289        109 DAQNVARQL-----------------------------RIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       109 ~~~~~~~~~-----------------------------~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      ...++.+.+                             .+|++.+||.+|.|++++...|.
T Consensus       159 ~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         159 TLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            112222211                             14799999999999999887664

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.29  E-value=1.1e-10  Score=89.76  Aligned_cols=105  Identities=20%  Similarity=0.316  Sum_probs=79.0

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      .+.|.||||++-|..|+..-.+=+|++++|++++|   |++.+.+.       .. ...++|+++++||+|.++..   +
T Consensus        56 ~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~-------ha-k~a~vP~iVAiNKiDk~~~n---p  124 (509)
T COG0532          56 GITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAIN-------HA-KAAGVPIVVAINKIDKPEAN---P  124 (509)
T ss_pred             eEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHH-------HH-HHCCCCEEEEEecccCCCCC---H
Confidence            34559999999999998888888999999999998   45555432       21 12689999999999987422   3


Q ss_pred             HHHHHHHHHcC---------CcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        108 MDAQNVARQLR---------IPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       108 ~~~~~~~~~~~---------~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .....-.+++|         +.++++||++|.|++++++.++-+....
T Consensus       125 ~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~aev~  172 (509)
T COG0532         125 DKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLLAEVL  172 (509)
T ss_pred             HHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHHHHHH
Confidence            33333333344         4589999999999999999988766544

>KOG0077|consensus

Probab=99.29  E-value=1.4e-11  Score=81.26  Aligned_cols=127  Identities=18%  Similarity=0.280  Sum_probs=96.1

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD   86 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~   86 (159)
                      +.++.-||     +..+.+.|.+++.  +|.+|+..-+..|..|+-.+|++++.+|+.|.+.|.+...-++.+.......
T Consensus        48 hvPTlHPT-----SE~l~Ig~m~ftt--~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e~la  120 (193)
T KOG0077|consen   48 HVPTLHPT-----SEELSIGGMTFTT--FDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDESLA  120 (193)
T ss_pred             cCCCcCCC-----hHHheecCceEEE--EccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHHHHh
Confidence            34444454     3445777877777  9999999888899999999999999999999999998887777777766667


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHH---HHcC--------------CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVA---RQLR--------------IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~---~~~~--------------~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +.|+++.+||+|.+.  .+++++.+...   ...+              +..+.||...+.+.-+.|.|+...
T Consensus       121 ~vp~lilgnKId~p~--a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  121 TVPFLILGNKIDIPY--AASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             cCcceeecccccCCC--cccHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccCccceeeeehhhh
Confidence            899999999999864  34555543321   1111              236889999988888888887654

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.28  E-value=6.3e-11  Score=83.66  Aligned_cols=79  Identities=22%  Similarity=0.278  Sum_probs=58.8

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC-CcCCC
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD-HQRQV  105 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~-~~~~~  105 (159)
                      ++.+.+++|||||+++|.......++.+|++++|+|+++..+.+... .+.....    .++|+++++||+|+. .+..+
T Consensus        70 ~~~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~-~l~~~~~----~~~p~ilviNKiD~~~~e~~~  144 (222)
T cd01885          70 GNEYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTET-VLRQALK----ERVKPVLVINKIDRLILELKL  144 (222)
T ss_pred             CCceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHH-HHHHHHH----cCCCEEEEEECCCcchhhhcC
Confidence            55788899999999999999999999999999999999876554422 2222222    457999999999975 33344


Q ss_pred             CHHHH
Q psy11289        106 SSMDA  110 (159)
Q Consensus       106 ~~~~~  110 (159)
                      +.+++
T Consensus       145 ~~~~~  149 (222)
T cd01885         145 SPEEA  149 (222)
T ss_pred             CHHHH
Confidence            44443

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

>COG1159 Era GTPase [General function prediction only]

Probab=99.26  E-value=1.7e-10  Score=83.13  Aligned_cols=133  Identities=16%  Similarity=0.100  Sum_probs=87.6

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      ..+...+.|+.......++.++.++  .+.||||..+-..        .....+.++|+++||.|++++-.-.+ ...++
T Consensus        32 sIvS~k~QTTR~~I~GI~t~~~~Qi--IfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d-~~il~  108 (298)
T COG1159          32 SIVSPKPQTTRNRIRGIVTTDNAQI--IFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGD-EFILE  108 (298)
T ss_pred             EeecCCcchhhhheeEEEEcCCceE--EEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccH-HHHHH
Confidence            3456677788877777777676665  4599999865422        22334678999999999988433211 11122


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+..    .+.|++++.||.|.......-......+..... ..++++||++|.|++.+.+.+...+.+
T Consensus       109 ~lk~----~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         109 QLKK----TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLPE  173 (298)
T ss_pred             HHhh----cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCCC
Confidence            2322    457999999999987654421222222233333 359999999999999999988876643

>PRK12736 elongation factor Tu; Reviewed

Probab=99.23  E-value=3e-10  Score=86.75  Aligned_cols=110  Identities=16%  Similarity=0.201  Sum_probs=71.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCCC--
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQVS--  106 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~~--  106 (159)
                      ..+.|+||||+++|......-+..+|++++|+|+++...-.. ...+..+..    .++| +|+++||+|+.+.....  
T Consensus        75 ~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t-~~~~~~~~~----~g~~~~IvviNK~D~~~~~~~~~~  149 (394)
T PRK12736         75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQT-REHILLARQ----VGVPYLVVFLNKVDLVDDEELLEL  149 (394)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHH----cCCCEEEEEEEecCCcchHHHHHH
Confidence            345679999999886655555678999999999987422111 122222322    3567 67889999986432221  


Q ss_pred             -HHHHHHHHHHcC-----CcEEEeCCCCCC--------CHHHHHHHHHHHHH
Q psy11289        107 -SMDAQNVARQLR-----IPYIECSAKVRI--------NVDQAFHELVRIVL  144 (159)
Q Consensus       107 -~~~~~~~~~~~~-----~~~~~~sa~~~~--------~i~~~~~~l~~~~~  144 (159)
                       .++...+.+..+     ++++++||++|.        ++.++++.+.+.+.
T Consensus       150 i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        150 VEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             HHHHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence             124445555554     579999999983        56777777766553

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.23  E-value=2.7e-10  Score=87.02  Aligned_cols=102  Identities=17%  Similarity=0.181  Sum_probs=64.9

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCc
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQ  102 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~  102 (159)
                      .++....++.||||||+++|..........+|++++|+|+++...-+. .+.+..+..    .++|.+ +++||+|+.+.
T Consensus        69 ~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt-~e~l~~~~~----~gi~~iIvvvNK~Dl~~~  143 (394)
T TIGR00485        69 EYETENRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQT-REHILLARQ----VGVPYIVVFLNKCDMVDD  143 (394)
T ss_pred             EEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH----cCCCEEEEEEEecccCCH
Confidence            333334456679999999886655555678899999999987322211 122222222    356655 68999998643


Q ss_pred             CCCC---HHHHHHHHHHcC-----CcEEEeCCCCCC
Q psy11289        103 RQVS---SMDAQNVARQLR-----IPYIECSAKVRI  130 (159)
Q Consensus       103 ~~~~---~~~~~~~~~~~~-----~~~~~~sa~~~~  130 (159)
                      ....   .++...+++.++     ++++++||++|.
T Consensus       144 ~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       144 EELLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence            2211   234555666655     689999999874

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.

>cd01855 YqeH YqeH

Probab=99.22  E-value=1.3e-10  Score=80.22  Aligned_cols=93  Identities=17%  Similarity=0.191  Sum_probs=66.3

Q ss_pred             chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHH-----HHc
Q psy11289         43 FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-----RQL  117 (159)
Q Consensus        43 ~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~  117 (159)
                      +.+++..+++++|++++|+|++++..     .|...+...  ..++|+++|+||+|+..... ..+....+.     +..
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~--~~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~   95 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLF--GGNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAGL   95 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHh--cCCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhhc
Confidence            46788889999999999999988642     122222222  24689999999999864332 233333343     233


Q ss_pred             CC---cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        118 RI---PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       118 ~~---~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +.   +++++||++|.|++++++.+...+
T Consensus        96 ~~~~~~i~~vSA~~~~gi~eL~~~l~~~l  124 (190)
T cd01855          96 GLKPKDVILISAKKGWGVEELINAIKKLA  124 (190)
T ss_pred             CCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            43   589999999999999999998866

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.22  E-value=3.8e-10  Score=89.09  Aligned_cols=133  Identities=14%  Similarity=0.198  Sum_probs=103.4

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccch------HHHHHHh--hcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS------AMREQYM--RSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      +..++||++.+-+..+..+...+..+++  .|.||.....      ...+.|+  .++|+++-|.|+++.+.--.+   -
T Consensus        27 ~q~VgNwpGvTVEkkeg~~~~~~~~i~i--vDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyl---t  101 (653)
T COG0370          27 NQKVGNWPGVTVEKKEGKLKYKGHEIEI--VDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYL---T  101 (653)
T ss_pred             CceecCCCCeeEEEEEEEEEecCceEEE--EeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHH---H
Confidence            4568899999988888888888888655  9999986542      2344554  367999999999986543332   2


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .++.+    -+.|++++.|..|..+++.+.. +...+.+.+|+|++++||++|.|++++.+.+.+....+.
T Consensus       102 lQLlE----~g~p~ilaLNm~D~A~~~Gi~I-D~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~~~~~~  167 (653)
T COG0370         102 LQLLE----LGIPMILALNMIDEAKKRGIRI-DIEKLSKLLGVPVVPTVAKRGEGLEELKRAIIELAESKT  167 (653)
T ss_pred             HHHHH----cCCCeEEEeccHhhHHhcCCcc-cHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhccccc
Confidence            33434    4689999999999988777754 667899999999999999999999999999987655444

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.22  E-value=6.8e-10  Score=77.02  Aligned_cols=98  Identities=17%  Similarity=0.198  Sum_probs=65.2

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCC---
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQV---  105 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~---  105 (159)
                      .++.+.||||+.+|.......+..+|++++|+|++..-.-. ....+..+..    .++| +|++.||+|+......   
T Consensus        65 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~-~~~~~~~~~~----~~~~~iIvviNK~D~~~~~~~~~~  139 (195)
T cd01884          65 RHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQ-TREHLLLARQ----VGVPYIVVFLNKADMVDDEELLEL  139 (195)
T ss_pred             eEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHH-HHHHHHHHHH----cCCCcEEEEEeCCCCCCcHHHHHH
Confidence            34566999999988776677778999999999998742221 1222233322    3456 7789999998532221   


Q ss_pred             CHHHHHHHHHHcC-----CcEEEeCCCCCCCH
Q psy11289        106 SSMDAQNVARQLR-----IPYIECSAKVRINV  132 (159)
Q Consensus       106 ~~~~~~~~~~~~~-----~~~~~~sa~~~~~i  132 (159)
                      ..++...+....|     ++++++||++|.|+
T Consensus       140 ~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         140 VEMEVRELLSKYGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             HHHHHHHHHHHhcccccCCeEEEeeCccccCC
Confidence            1223444555544     57999999999885

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.

>KOG1145|consensus

Probab=99.20  E-value=5.5e-10  Score=86.16  Aligned_cols=109  Identities=22%  Similarity=0.282  Sum_probs=82.1

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      +|+.+++  -||||+.-|..|+..-.+-+|++++|+.++|   |.+.+.+       ... ...++|+|+..||+|.++.
T Consensus       199 ~G~~iTF--LDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~EaI-------khA-k~A~VpiVvAinKiDkp~a  268 (683)
T KOG1145|consen  199 SGKSITF--LDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTLEAI-------KHA-KSANVPIVVAINKIDKPGA  268 (683)
T ss_pred             CCCEEEE--ecCCcHHHHHHHHhccCccccEEEEEEEccCCccHhHHHHH-------HHH-HhcCCCEEEEEeccCCCCC
Confidence            6777666  9999999999999999999999999999988   4444443       232 2368999999999997642


Q ss_pred             CCCCHHHHH-HHH------HHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        103 RQVSSMDAQ-NVA------RQLR--IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       103 ~~~~~~~~~-~~~------~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                         +++... ++.      +++|  +.++++||++|.|++.+-+.++-+..-+-
T Consensus       269 ---~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~Ae~md  319 (683)
T KOG1145|consen  269 ---NPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLLAEVMD  319 (683)
T ss_pred             ---CHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHHHHHhh
Confidence               233333 332      2333  56999999999999999999887665443

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.20  E-value=4.6e-10  Score=88.35  Aligned_cols=72  Identities=21%  Similarity=0.250  Sum_probs=52.6

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .++...+++++|||||+.+|.......++.+|++++|+|+++.-.. ....++...    ...++|+++++||+|+.
T Consensus        73 ~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~----~~~~iPiiv~iNK~D~~  144 (526)
T PRK00741         73 QFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVC----RLRDTPIFTFINKLDRD  144 (526)
T ss_pred             EEEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHH----HhcCCCEEEEEECCccc
Confidence            3443446677799999999988778888999999999999875322 223333332    22578999999999974

>cd01859 MJ1464 MJ1464

Probab=99.20  E-value=7.4e-11  Score=78.95  Aligned_cols=95  Identities=19%  Similarity=0.213  Sum_probs=65.8

Q ss_pred             chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEE
Q psy11289         43 FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI  122 (159)
Q Consensus        43 ~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  122 (159)
                      ++.+.+...+++|++++|+|++++...... .+...+ .   ..++|+++|+||+|+.+....  .....+....+.+++
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~~-~l~~~~-~---~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~   74 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRSR-KLERYV-L---ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVV   74 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCCH-HHHHHH-H---hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEE
Confidence            356778888899999999999886543221 121112 1   146899999999998542211  111133444567899


Q ss_pred             EeCCCCCCCHHHHHHHHHHHHH
Q psy11289        123 ECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       123 ~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .+||+++.|++++++.+.+.+.
T Consensus        75 ~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          75 YVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             EEEccccccHHHHHHHHHHHHh
Confidence            9999999999999999987764

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.20  E-value=2.1e-10  Score=84.11  Aligned_cols=87  Identities=17%  Similarity=0.093  Sum_probs=67.8

Q ss_pred             HHhhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289         49 QYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        49 ~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      ..+.++|.+++|+|++++. ++..+.+|+..+..    .++|+++|+||+|+.+..  .......+....+.+++.+||+
T Consensus        74 ~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~----~~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          74 VIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA----AGIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH----cCCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECC
Confidence            4578999999999999988 88888888876654    468999999999986531  1112233345578899999999


Q ss_pred             CCCCHHHHHHHHHH
Q psy11289        128 VRINVDQAFHELVR  141 (159)
Q Consensus       128 ~~~~i~~~~~~l~~  141 (159)
                      ++.|+++++..+..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999999887753

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=99.18  E-value=2.9e-10  Score=83.75  Aligned_cols=86  Identities=19%  Similarity=0.168  Sum_probs=64.7

Q ss_pred             HhhcCCEEEEEEECCChhhHHH-HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCC
Q psy11289         50 YMRSGEGFLLVFSVTDRNSFEE-IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKV  128 (159)
Q Consensus        50 ~~~~~~~ii~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  128 (159)
                      .+.++|.+++|+|++++++... +.+|+..+..    .++|+++|+||+|+.+... .........+..+++++++||++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~----~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~  151 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA----NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKE  151 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCC
Confidence            3589999999999998876544 4677766543    5689999999999863221 12233445566789999999999


Q ss_pred             CCCHHHHHHHHH
Q psy11289        129 RINVDQAFHELV  140 (159)
Q Consensus       129 ~~~i~~~~~~l~  140 (159)
                      +.|++++++.+.
T Consensus       152 g~gi~~L~~~l~  163 (298)
T PRK00098        152 GEGLDELKPLLA  163 (298)
T ss_pred             CccHHHHHhhcc
Confidence            999999988764

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.18  E-value=3.9e-10  Score=87.25  Aligned_cols=102  Identities=16%  Similarity=0.183  Sum_probs=70.7

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHH-------HHHHHHHHHHhhcCCCCC-cEEEEEeCCC
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE-------EIYKFHRQILRVKDRDEF-PMLMVGNKAD   98 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~-------~~~~~~~~i~~~~~~~~~-p~ivv~nK~D   98 (159)
                      .....+.+.|+||+++|.......+..+|++|+|+|+++. +|+       ...+.+. +...   .++ ++|+++||+|
T Consensus        82 ~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~-~~~~---~gi~~iIV~vNKmD  156 (447)
T PLN00043         82 TTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHAL-LAFT---LGVKQMICCCNKMD  156 (447)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHH-HHHH---cCCCcEEEEEEccc
Confidence            3445667799999999988888888999999999999873 221       2222222 2221   456 4788999999


Q ss_pred             CCCcCCCC-------HHHHHHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289         99 LDHQRQVS-------SMDAQNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus        99 ~~~~~~~~-------~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      +.+. .++       .++...++++.|     ++++++||++|+|+.+
T Consensus       157 ~~~~-~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        157 ATTP-KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CCch-hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            7521 111       345566677666     5699999999999854

>cd04169 RF3 RF3 subfamily

Probab=99.18  E-value=1.3e-09  Score=79.07  Aligned_cols=93  Identities=16%  Similarity=0.196  Sum_probs=61.3

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ....++...+++++|||||+.+|.......++.+|++++|+|+++.... ....++....    ..++|+++++||+|+.
T Consensus        62 ~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~----~~~~P~iivvNK~D~~  136 (267)
T cd04169          62 SVMQFEYRDCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCR----LRGIPIITFINKLDRE  136 (267)
T ss_pred             EEEEEeeCCEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHH----hcCCCEEEEEECCccC
Confidence            3334445556778899999999887777888999999999999875332 2223333322    2568999999999975


Q ss_pred             CcCCCCHHHHHHHHHHcCCc
Q psy11289        101 HQRQVSSMDAQNVARQLRIP  120 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~  120 (159)
                      ....  .+...++...++.+
T Consensus       137 ~a~~--~~~~~~l~~~l~~~  154 (267)
T cd04169         137 GRDP--LELLDEIEEELGID  154 (267)
T ss_pred             CCCH--HHHHHHHHHHHCCC
Confidence            4321  12233444455544

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.16  E-value=6.3e-10  Score=86.13  Aligned_cols=111  Identities=15%  Similarity=0.210  Sum_probs=73.3

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SM  108 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~  108 (159)
                      .+.|.|+||+++|......-+..+|++++|+|++++..-....+.+ .+....  .-.|+|++.||+|+.+...+.  .+
T Consensus       118 ~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl-~i~~~l--gi~~iIVvlNKiDlv~~~~~~~~~~  194 (460)
T PTZ00327        118 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHL-AAVEIM--KLKHIIILQNKIDLVKEAQAQDQYE  194 (460)
T ss_pred             eEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHH-HHHHHc--CCCcEEEEEecccccCHHHHHHHHH
Confidence            4677999999998766666677899999999998741111111111 222322  224689999999986422211  12


Q ss_pred             HHHHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        109 DAQNVARQ---LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       109 ~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +...+.+.   .+.+++++||++|.|++.+++.|...+.
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence            22333322   2578999999999999999999887554

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.15  E-value=4.5e-10  Score=73.47  Aligned_cols=99  Identities=18%  Similarity=0.149  Sum_probs=72.4

Q ss_pred             EEEeCCCcc----cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         33 DILDTAGQE----EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        33 ~l~D~~g~~----~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      .++||||.-    +|.+..-....+||.+++|.|++++.+.-.     +.+...   -+.|+|-|+||+|+.. .....+
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~p-----P~fa~~---f~~pvIGVITK~Dl~~-~~~~i~  109 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFP-----PGFASM---FNKPVIGVITKIDLPS-DDANIE  109 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCC-----chhhcc---cCCCEEEEEECccCcc-chhhHH
Confidence            348999973    233334444679999999999998754322     122222   3579999999999973 233466


Q ss_pred             HHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHH
Q psy11289        109 DAQNVARQLRIP-YIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       109 ~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~  140 (159)
                      .++++.+..|+. +|++|+.+|.|++++.+.|-
T Consensus       110 ~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  110 RAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             HHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            777888888876 89999999999999998763

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

>PRK12289 GTPase RsgA; Reviewed

Probab=99.15  E-value=2.1e-10  Score=85.93  Aligned_cols=91  Identities=16%  Similarity=0.203  Sum_probs=67.2

Q ss_pred             HHHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEE
Q psy11289         45 AMREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE  123 (159)
Q Consensus        45 ~~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  123 (159)
                      .+....+.++|.+++|+|+.++. +...+.+|+..+..    .++|+++|+||+|+......  +........+|++++.
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~----~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v~~  154 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES----TGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQPLF  154 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeEEE
Confidence            34455689999999999999876 45566777765522    57899999999998642211  1222333467889999


Q ss_pred             eCCCCCCCHHHHHHHHHH
Q psy11289        124 CSAKVRINVDQAFHELVR  141 (159)
Q Consensus       124 ~sa~~~~~i~~~~~~l~~  141 (159)
                      +||+++.|++++++.+..
T Consensus       155 iSA~tg~GI~eL~~~L~~  172 (352)
T PRK12289        155 ISVETGIGLEALLEQLRN  172 (352)
T ss_pred             EEcCCCCCHHHHhhhhcc
Confidence            999999999999988864

>KOG0082|consensus

Probab=99.13  E-value=5.1e-10  Score=83.03  Aligned_cols=144  Identities=17%  Similarity=0.208  Sum_probs=101.7

Q ss_pred             ccccccccccccccceE----------EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh-----
Q psy11289          3 IESYFVTDYDPTIEDSY----------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN-----   67 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~-----   67 (159)
                      +++-..++|.||..|..          ...+++.+  ..+.++|+|||..-+..|.+++.+++++|||.++++-+     
T Consensus       160 l~rI~~~~Y~PT~~DIL~~R~~T~GI~e~~F~~k~--~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~E  237 (354)
T KOG0082|consen  160 LDRISSPDYVPTEQDILRSRVPTTGIVEVEFTIKG--LKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEE  237 (354)
T ss_pred             HHHhcCCCCCCCHHHHHhhccCcCCeeEEEEEeCC--CceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhccc
Confidence            45567788888877543          22233344  34556999999888889999999999999999998743     


Q ss_pred             -----hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc--------------CC-CCHHHHHHHHHHc----------
Q psy11289         68 -----SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ--------------RQ-VSSMDAQNVARQL----------  117 (159)
Q Consensus        68 -----s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~--------------~~-~~~~~~~~~~~~~----------  117 (159)
                           .+.+...++..|.+...-.++++|+..||.|+-++              .+ -+.+++..+.+..          
T Consensus       238 D~~~NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k  317 (354)
T KOG0082|consen  238 DETTNRMHESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDK  317 (354)
T ss_pred             ccchhHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCC
Confidence                 23444556666666655568999999999998321              11 2344444433211          


Q ss_pred             CCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        118 RIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       118 ~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .+-++.++|.+..+|+.+|+.+...+.+...
T Consensus       318 ~iy~h~T~AtDT~nv~~vf~av~d~Ii~~nl  348 (354)
T KOG0082|consen  318 KIYVHFTCATDTQNVQFVFDAVTDTIIQNNL  348 (354)
T ss_pred             cceEEEEeeccHHHHHHHHHHHHHHHHHHHH
Confidence            2447788999999999999999998876653

>PRK09866 hypothetical protein; Provisional

Probab=99.12  E-value=2.6e-09  Score=84.55  Aligned_cols=109  Identities=23%  Similarity=0.284  Sum_probs=71.9

Q ss_pred             EEEEEEeCCCcccc-----hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         30 ARLDILDTAGQEEF-----SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        30 ~~~~l~D~~g~~~~-----~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      ..+.|.||||....     .......+.++|+|+||+|.++.-+..+. ...+.+.+..  .+.|+++|+||+|+.+...
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De-eIlk~Lkk~~--K~~PVILVVNKIDl~dree  306 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE-EVREAILAVG--QSVPLYVLVNKFDQQDRNS  306 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH-HHHHHHHhcC--CCCCEEEEEEcccCCCccc
Confidence            44566999998642     22344568899999999999875333321 1223333321  2359999999999864333


Q ss_pred             CCHHHHHHHHH----HcCC---cEEEeCCCCCCCHHHHHHHHHH
Q psy11289        105 VSSMDAQNVAR----QLRI---PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus       105 ~~~~~~~~~~~----~~~~---~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      -..+....+..    ..++   .++++||++|.|++.+++.+..
T Consensus       307 ddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        307 DDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             chHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            23444444432    2223   4999999999999999998876

>KOG1489|consensus

Probab=99.12  E-value=9.8e-10  Score=79.76  Aligned_cols=107  Identities=20%  Similarity=0.319  Sum_probs=77.7

Q ss_pred             EEEEeCCCcccchHH----HHHH---hhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcC-CCCCcEEEEEeCCCCC
Q psy11289         32 LDILDTAGQEEFSAM----REQY---MRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADLD  100 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~----~~~~---~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~-~~~~p~ivv~nK~D~~  100 (159)
                      +.+=|+||..+-.++    .-.|   ++.++.++||+|++.+   +.++++..+..++..+.. ..+.|.++|+||+|++
T Consensus       246 ~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~  325 (366)
T KOG1489|consen  246 ITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP  325 (366)
T ss_pred             eEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch
Confidence            555999998654332    2223   5678999999999998   788887776666666553 3578999999999986


Q ss_pred             CcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHH
Q psy11289        101 HQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      +.+   .....++++.+.- .++++||++++|+.++++.+-+
T Consensus       326 eae---~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  326 EAE---KNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             hHH---HHHHHHHHHHcCCCcEEEeeeccccchHHHHHHHhh
Confidence            311   1123556666554 4999999999999999887644

>COG2262 HflX GTPases [General function prediction only]

Probab=99.11  E-value=6.7e-09  Score=77.85  Aligned_cols=134  Identities=19%  Similarity=0.199  Sum_probs=90.7

Q ss_pred             cccccccccccceEEEEEEEC-CeeEEEEEEeCCCcccc--hHHHHHH------hhcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVID-DIPARLDILDTAGQEEF--SAMREQY------MRSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~--~~~~~~~------~~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      .+..+.-.++-+...+.+.+. |.++.+  -||.|..+.  ..+.+.|      ...||.++.|+|+++|...+++..-.
T Consensus       217 ~~~~d~LFATLdpttR~~~l~~g~~vlL--tDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~~~~~~v~  294 (411)
T COG2262         217 VYVADQLFATLDPTTRRIELGDGRKVLL--TDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEILEKLEAVE  294 (411)
T ss_pred             eeccccccccccCceeEEEeCCCceEEE--ecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHHHHHHHHH
Confidence            344455555555556666665 566555  999998654  2233433      46899999999999997777766544


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .-+ ...+..++|+|+|.||+|+.....    ....+..... ..+.+||++|.|++.+.+.|...+....
T Consensus       295 ~vL-~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         295 DVL-AEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTGEGLDLLRERIIELLSGLR  359 (411)
T ss_pred             HHH-HHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccCcCHHHHHHHHHHHhhhcc
Confidence            444 333445699999999999754332    1111111112 5899999999999999999998886443

>PRK12735 elongation factor Tu; Reviewed

Probab=99.11  E-value=2e-09  Score=82.29  Aligned_cols=109  Identities=15%  Similarity=0.186  Sum_probs=70.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCcCCC---
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQRQV---  105 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~~~~---  105 (159)
                      .++.|+||||+++|......-+..+|++++|+|+.+...-+ ..+.+..+..    .++|.+ +++||+|+.+....   
T Consensus        75 ~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~q-t~e~l~~~~~----~gi~~iivvvNK~Dl~~~~~~~~~  149 (396)
T PRK12735         75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQ----VGVPYIVVFLNKCDMVDDEELLEL  149 (396)
T ss_pred             cEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchh-HHHHHHHHHH----cCCCeEEEEEEecCCcchHHHHHH
Confidence            34567999999888665556677899999999998742221 1222222222    457755 57999998642221   


Q ss_pred             CHHHHHHHHHHcC-----CcEEEeCCCCCC----------CHHHHHHHHHHHH
Q psy11289        106 SSMDAQNVARQLR-----IPYIECSAKVRI----------NVDQAFHELVRIV  143 (159)
Q Consensus       106 ~~~~~~~~~~~~~-----~~~~~~sa~~~~----------~i~~~~~~l~~~~  143 (159)
                      ..++...+.+.++     ++++++||++|.          ++..+++.+...+
T Consensus       150 ~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        150 VEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             HHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            1124445555543     679999999984          5677777776654

>PRK13351 elongation factor G; Reviewed

Probab=99.07  E-value=4.3e-09  Score=85.66  Aligned_cols=67  Identities=27%  Similarity=0.357  Sum_probs=53.7

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..++++|||||+.+|...+..+++.+|++++|+|+++..+......| ..+..    .++|+++++||+|+.
T Consensus        72 ~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~----~~~p~iiviNK~D~~  138 (687)
T PRK13351         72 NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVW-RQADR----YGIPRLIFINKMDRV  138 (687)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh----cCCCEEEEEECCCCC
Confidence            45677799999999988899999999999999999987666554444 33322    468999999999985

>PRK12288 GTPase RsgA; Reviewed

Probab=99.07  E-value=1.6e-09  Score=81.22  Aligned_cols=87  Identities=15%  Similarity=0.085  Sum_probs=67.2

Q ss_pred             hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC-CHHHHHHHHHHcCCcEEEeCCCCC
Q psy11289         51 MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV-SSMDAQNVARQLRIPYIECSAKVR  129 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~sa~~~  129 (159)
                      ..|+|.+++|++.+.+.++..+.+|+..+..    .++|+++|+||+|+.+.... .........+..|++++++||+++
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~----~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg  193 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET----LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTG  193 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh----cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCC
Confidence            4679999999999988899999999865432    56899999999999643211 112223344567889999999999


Q ss_pred             CCHHHHHHHHHH
Q psy11289        130 INVDQAFHELVR  141 (159)
Q Consensus       130 ~~i~~~~~~l~~  141 (159)
                      .|++++++.+..
T Consensus       194 ~GideL~~~L~~  205 (347)
T PRK12288        194 EGLEELEAALTG  205 (347)
T ss_pred             cCHHHHHHHHhh
Confidence            999999998864

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=99.06  E-value=1.4e-09  Score=82.15  Aligned_cols=95  Identities=22%  Similarity=0.294  Sum_probs=70.9

Q ss_pred             cccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH----HHHH
Q psy11289         40 QEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ----NVAR  115 (159)
Q Consensus        40 ~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~----~~~~  115 (159)
                      .++|..+...+.++++++++|+|+.+..     ..|...+.+..  .+.|+++|+||+|+.. +....+...    ++++
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~-----~s~~~~l~~~~--~~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k  121 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFE-----GSLIPELKRFV--GGNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAK  121 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCC-----CCccHHHHHHh--CCCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHH
Confidence            4678888888889999999999997743     23445555543  3679999999999864 333334443    3466


Q ss_pred             HcCC---cEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        116 QLRI---PYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       116 ~~~~---~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +.++   .++.+||++|.|++++++.+.+.
T Consensus       122 ~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       122 ELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            6776   48999999999999999998654

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.06  E-value=2.9e-09  Score=83.05  Aligned_cols=102  Identities=19%  Similarity=0.095  Sum_probs=63.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      .++.|+||||+++|......-+..+|++++|+|+++.-.-.....+  .+....  ...|+++++||+|+.+...-..++
T Consensus       107 ~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~--~l~~~l--g~~~iIvvvNKiD~~~~~~~~~~~  182 (474)
T PRK05124        107 RKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS--FIATLL--GIKHLVVAVNKMDLVDYSEEVFER  182 (474)
T ss_pred             cEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH--HHHHHh--CCCceEEEEEeeccccchhHHHHH
Confidence            3466799999998865555557899999999999764221111111  122222  124789999999986422111112


Q ss_pred             H----HHHHHHcC----CcEEEeCCCCCCCHHHH
Q psy11289        110 A----QNVARQLR----IPYIECSAKVRINVDQA  135 (159)
Q Consensus       110 ~----~~~~~~~~----~~~~~~sa~~~~~i~~~  135 (159)
                      .    ..+.+..+    ++++++||++|.|+.++
T Consensus       183 i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        183 IREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            2    22333333    67999999999999764

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.05  E-value=3.5e-09  Score=81.20  Aligned_cols=100  Identities=19%  Similarity=0.119  Sum_probs=64.1

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH---
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS---  107 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~---  107 (159)
                      ++.|+||||+++|......-+..+|++++|+|++....-+....|  .+....  ...++++++||+|+.+...-..   
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~--~~~~~~--~~~~iivviNK~D~~~~~~~~~~~i  156 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHS--YIASLL--GIRHVVLAVNKMDLVDYDEEVFENI  156 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHH--HHHHHc--CCCcEEEEEEecccccchHHHHHHH
Confidence            566799999999876566667899999999999764322111111  122222  2236889999999864221111   


Q ss_pred             -HHHHHHHHHcC---CcEEEeCCCCCCCHHH
Q psy11289        108 -MDAQNVARQLR---IPYIECSAKVRINVDQ  134 (159)
Q Consensus       108 -~~~~~~~~~~~---~~~~~~sa~~~~~i~~  134 (159)
                       ++...+.+..+   ++++++||++|.|+++
T Consensus       157 ~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       157 KKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence             12223334444   4699999999999885

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).

>PRK13768 GTPase; Provisional

Probab=99.02  E-value=3.8e-09  Score=76.17  Aligned_cols=109  Identities=16%  Similarity=0.206  Sum_probs=69.8

Q ss_pred             EEEEEeCCCcccc---hHHHHHHhhc-----CCEEEEEEECCChhhHHHH--HHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         31 RLDILDTAGQEEF---SAMREQYMRS-----GEGFLLVFSVTDRNSFEEI--YKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        31 ~~~l~D~~g~~~~---~~~~~~~~~~-----~~~ii~v~d~~~~~s~~~~--~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .+.+||+||+...   ...+..+.+.     ++++++++|++......+.  ..|+.......  .++|+++|+||+|+.
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~--~~~~~i~v~nK~D~~  175 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR--LGLPQIPVLNKADLL  175 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH--cCCCEEEEEEhHhhc
Confidence            3556999998663   3344444333     8999999999764433222  23332222222  468999999999986


Q ss_pred             CcCCCCHHHHHH----------------------------HHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        101 HQRQVSSMDAQN----------------------------VARQLR--IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       101 ~~~~~~~~~~~~----------------------------~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .....  +....                            ..+..+  .+++++|++++.|++++++++.+.+
T Consensus       176 ~~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        176 SEEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             CchhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            53322  11111                            122334  5789999999999999999998765

>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=99.00  E-value=1.4e-08  Score=72.04  Aligned_cols=121  Identities=15%  Similarity=0.169  Sum_probs=77.8

Q ss_pred             CeeEEEEEEeCCCcccchH-----HHHHHhhcCCEEEEEEECCChhhH---HHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         27 DIPARLDILDTAGQEEFSA-----MREQYMRSGEGFLLVFSVTDRNSF---EEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~-----~~~~~~~~~~~ii~v~d~~~~~s~---~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      ...+.+++||+||+..+..     ..+..++++.++|+|+|+.+.+..   ..+...+..+.++.  ++..+-+..+|+|
T Consensus        45 ~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~s--p~~~v~vfiHK~D  122 (232)
T PF04670_consen   45 LSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYS--PNIKVFVFIHKMD  122 (232)
T ss_dssp             TTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHS--TT-EEEEEEE-CC
T ss_pred             CCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhC--CCCeEEEEEeecc
Confidence            3445678899999976533     367778999999999999854433   33344455555554  7889999999999


Q ss_pred             CCCcCC--CC----HHHHHHHHHHcC---CcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         99 LDHQRQ--VS----SMDAQNVARQLR---IPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        99 ~~~~~~--~~----~~~~~~~~~~~~---~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      +..+..  ..    .+...+.+...+   +.++.+|.-+ ..+.++|..++..+....+.-
T Consensus       123 ~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~LiP~~~~l  182 (232)
T PF04670_consen  123 LLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-ESLYEAWSKIVQKLIPNLSTL  182 (232)
T ss_dssp             CS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-THHHHHHHHHHHTTSTTHCCC
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-cHHHHHHHHHHHHHcccHHHH
Confidence            853211  10    112223344445   6688888887 689999999998887665443

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=98.96  E-value=1.3e-08  Score=77.46  Aligned_cols=124  Identities=19%  Similarity=0.247  Sum_probs=84.8

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      .++-...++++.||||+..|....+..++.+|++++++|+.+.. ..+..-.+++.++    .+.+.|+|.||+|.+..+
T Consensus        62 av~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGp-MPQTrFVlkKAl~----~gL~PIVVvNKiDrp~Ar  136 (603)
T COG1217          62 AVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGP-MPQTRFVLKKALA----LGLKPIVVINKIDRPDAR  136 (603)
T ss_pred             eeecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCC-CCchhhhHHHHHH----cCCCcEEEEeCCCCCCCC
Confidence            33333356777999999999999999999999999999998732 1111112233333    456778899999987655


Q ss_pred             CCC-HHHHHHHHH-------HcCCcEEEeCCCCC----------CCHHHHHHHHHHHHHhccccCCC
Q psy11289        104 QVS-SMDAQNVAR-------QLRIPYIECSAKVR----------INVDQAFHELVRIVLLHTKQCKN  152 (159)
Q Consensus       104 ~~~-~~~~~~~~~-------~~~~~~~~~sa~~~----------~~i~~~~~~l~~~~~~~~~~~~~  152 (159)
                      .-. .++...+.-       ++++|++..|++.|          .++..+|+.|++.+.......+.
T Consensus       137 p~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~~~~d~  203 (603)
T COG1217         137 PDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPKGDLDE  203 (603)
T ss_pred             HHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhCCCCCCCCCC
Confidence            321 233444443       44588999999887          36888888888877665544333

>CHL00071 tufA elongation factor Tu

Probab=98.95  E-value=2.2e-08  Score=76.91  Aligned_cols=96  Identities=16%  Similarity=0.207  Sum_probs=63.1

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCCC---
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQVS---  106 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~~---  106 (159)
                      ++.|.||||+.+|.......+..+|++++|+|+...-.-+ ....+..+..    .++| +|++.||+|+.+.....   
T Consensus        76 ~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~q-t~~~~~~~~~----~g~~~iIvvvNK~D~~~~~~~~~~~  150 (409)
T CHL00071         76 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TKEHILLAKQ----VGVPNIVVFLNKEDQVDDEELLELV  150 (409)
T ss_pred             EEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHH-HHHHHHHHHH----cCCCEEEEEEEccCCCCHHHHHHHH
Confidence            4556999999888666666678999999999998643221 1222222222    4568 77899999986532211   


Q ss_pred             HHHHHHHHHHcC-----CcEEEeCCCCCCC
Q psy11289        107 SMDAQNVARQLR-----IPYIECSAKVRIN  131 (159)
Q Consensus       107 ~~~~~~~~~~~~-----~~~~~~sa~~~~~  131 (159)
                      .++...+.+..+     ++++++||.+|.|
T Consensus       151 ~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        151 ELEVRELLSKYDFPGDDIPIVSGSALLALE  180 (409)
T ss_pred             HHHHHHHHHHhCCCCCcceEEEcchhhccc
Confidence            123444555544     6799999999864

>PRK00049 elongation factor Tu; Reviewed

Probab=98.94  E-value=2.9e-08  Score=75.92  Aligned_cols=108  Identities=15%  Similarity=0.175  Sum_probs=68.1

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCcCCCC--
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQRQVS--  106 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~~~~~--  106 (159)
                      ..+.+.||||+.+|.......+..+|++++|+|+++...-. ....+..+..    .++|.+ ++.||+|+.+....-  
T Consensus        75 ~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~q-t~~~~~~~~~----~g~p~iiVvvNK~D~~~~~~~~~~  149 (396)
T PRK00049         75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQ-TREHILLARQ----VGVPYIVVFLNKCDMVDDEELLEL  149 (396)
T ss_pred             eEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchH-HHHHHHHHHH----cCCCEEEEEEeecCCcchHHHHHH
Confidence            34566999999888666666678999999999998743221 2222333322    457876 589999986422211  


Q ss_pred             -HHHHHHHHHHcC-----CcEEEeCCCCCC----------CHHHHHHHHHHH
Q psy11289        107 -SMDAQNVARQLR-----IPYIECSAKVRI----------NVDQAFHELVRI  142 (159)
Q Consensus       107 -~~~~~~~~~~~~-----~~~~~~sa~~~~----------~i~~~~~~l~~~  142 (159)
                       ..+...+....+     ++++.+||++|.          ++..+++.+...
T Consensus       150 ~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        150 VEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             HHHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhc
Confidence             122333444333     679999999875          455666666554

>PRK12740 elongation factor G; Reviewed

Probab=98.94  E-value=4.2e-08  Score=79.73  Aligned_cols=71  Identities=21%  Similarity=0.344  Sum_probs=53.4

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      +..++  +.+.+|||||+.++...+...++.+|++++|+|+++.........| ..+..    .++|+++++||+|+.
T Consensus        55 ~~~~~--~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~----~~~p~iiv~NK~D~~  125 (668)
T PRK12740         55 CEWKG--HKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVW-RQAEK----YGVPRIIFVNKMDRA  125 (668)
T ss_pred             EEECC--EEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH----cCCCEEEEEECCCCC
Confidence            34445  4566699999998877888889999999999999987655543333 23322    468999999999985

>PLN03127 Elongation factor Tu; Provisional

Probab=98.92  E-value=4.2e-08  Score=76.03  Aligned_cols=109  Identities=17%  Similarity=0.181  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCCCH-
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQVSS-  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~~~-  107 (159)
                      .++.|.||||+.+|......-+..+|++++|+|+++...-+. ...+..+..    .++| +|++.||+|+.+...... 
T Consensus       124 ~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt-~e~l~~~~~----~gip~iIvviNKiDlv~~~~~~~~  198 (447)
T PLN03127        124 RHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQT-KEHILLARQ----VGVPSLVVFLNKVDVVDDEELLEL  198 (447)
T ss_pred             eEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhH-HHHHHHHHH----cCCCeEEEEEEeeccCCHHHHHHH
Confidence            345669999999886655555567999999999976432211 111222222    4578 578899999864222111 


Q ss_pred             --HHHHHHHHHcC-----CcEEEeCCC---CCCC-------HHHHHHHHHHHH
Q psy11289        108 --MDAQNVARQLR-----IPYIECSAK---VRIN-------VDQAFHELVRIV  143 (159)
Q Consensus       108 --~~~~~~~~~~~-----~~~~~~sa~---~~~~-------i~~~~~~l~~~~  143 (159)
                        .+...+....+     ++++++||.   +|.|       +.++++.+...+
T Consensus       199 i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~l  251 (447)
T PLN03127        199 VEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYI  251 (447)
T ss_pred             HHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhC
Confidence              12223333322     578888886   4555       667777776654

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=98.92  E-value=1.9e-08  Score=81.20  Aligned_cols=105  Identities=16%  Similarity=0.084  Sum_probs=65.5

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      ..++.+  +.|+||||+++|.......+..+|++++|+|+++...-+... .+..+ ...  ...|+++++||+|+.+..
T Consensus       100 ~~~~~~--~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e-~~~~~-~~~--~~~~iivvvNK~D~~~~~  173 (632)
T PRK05506        100 ATPKRK--FIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRR-HSFIA-SLL--GIRHVVLAVNKMDLVDYD  173 (632)
T ss_pred             ccCCce--EEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHH-HHHHH-HHh--CCCeEEEEEEecccccch
Confidence            334444  456999999988665555678999999999997643211111 11112 211  225788999999986421


Q ss_pred             CCCH----HHHHHHHHHcC---CcEEEeCCCCCCCHHH
Q psy11289        104 QVSS----MDAQNVARQLR---IPYIECSAKVRINVDQ  134 (159)
Q Consensus       104 ~~~~----~~~~~~~~~~~---~~~~~~sa~~~~~i~~  134 (159)
                      .-..    .+...+.+.++   ++++++||++|.|+.+
T Consensus       174 ~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        174 QEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             hHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            1111    12233344555   4599999999999874

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=98.92  E-value=2.8e-08  Score=72.29  Aligned_cols=95  Identities=23%  Similarity=0.344  Sum_probs=62.0

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      +..++.  ++.+|||||+.++...+...++.+|++++|+|+.+...-.. ...+..+..    .++|+++++||+|+.+.
T Consensus        59 ~~~~~~--~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~----~~~p~ivviNK~D~~~a  131 (270)
T cd01886          59 CFWKDH--RINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR----YNVPRIAFVNKMDRTGA  131 (270)
T ss_pred             EEECCE--EEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECCCCCCC
Confidence            344544  45669999999888888899999999999999987532221 222333322    56899999999998642


Q ss_pred             CCCCHHH-HHHHHHHcCC---c-EEEeCCC
Q psy11289        103 RQVSSMD-AQNVARQLRI---P-YIECSAK  127 (159)
Q Consensus       103 ~~~~~~~-~~~~~~~~~~---~-~~~~sa~  127 (159)
                      .   .+. ..++...++.   + .+++|+.
T Consensus       132 ~---~~~~~~~l~~~l~~~~~~~~~Pisa~  158 (270)
T cd01886         132 D---FFRVVEQIREKLGANPVPLQLPIGEE  158 (270)
T ss_pred             C---HHHHHHHHHHHhCCCceEEEeccccC
Confidence            2   222 2333334442   2 5666665

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

>PLN03126 Elongation factor Tu; Provisional

Probab=98.88  E-value=6.2e-08  Score=75.60  Aligned_cols=96  Identities=18%  Similarity=0.202  Sum_probs=63.3

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCCC---
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQVS---  106 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~~---  106 (159)
                      ++.|+|+||+++|......-+..+|++++|+|+.+...-.. .+++..+..    .++| ++++.||+|+.+.....   
T Consensus       145 ~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt-~e~~~~~~~----~gi~~iIvvvNK~Dl~~~~~~~~~i  219 (478)
T PLN03126        145 HYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQT-KEHILLAKQ----VGVPNMVVFLNKQDQVDDEELLELV  219 (478)
T ss_pred             EEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHH-HHHHHHHHH----cCCCeEEEEEecccccCHHHHHHHH
Confidence            45679999999987766666788999999999987532222 233333322    4567 77899999986422211   


Q ss_pred             HHHHHHHHHHc-----CCcEEEeCCCCCCC
Q psy11289        107 SMDAQNVARQL-----RIPYIECSAKVRIN  131 (159)
Q Consensus       107 ~~~~~~~~~~~-----~~~~~~~sa~~~~~  131 (159)
                      .++...+.+..     .++++++||.+|.+
T Consensus       220 ~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        220 ELEVRELLSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             HHHHHHHHHhcCCCcCcceEEEEEcccccc
Confidence            12334444444     36799999998853

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.88  E-value=5.5e-08  Score=71.16  Aligned_cols=132  Identities=17%  Similarity=0.181  Sum_probs=85.0

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcc-cchH-HH-------HHHhhcCCEEEEEEECCCh--hhHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE-EFSA-MR-------EQYMRSGEGFLLVFSVTDR--NSFEEIYKFH   76 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~-~~~~-~~-------~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~   76 (159)
                      ...|+-|+-..+...+..++.  ++|+.||||.- +--+ ++       -..-.=+++|+|+||++..  -+.+....++
T Consensus       195 vA~YPFTTK~i~vGhfe~~~~--R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~  272 (346)
T COG1084         195 VAPYPFTTKGIHVGHFERGYL--RIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLL  272 (346)
T ss_pred             cCCCCccccceeEeeeecCCc--eEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHH
Confidence            345555655444444444444  46679999973 3211 11       1112235899999999864  4567777888


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .++....   +.|+++|.||+|..+.+.+..  .......-| ...+.+++..+.+++.+-+.+.....+.
T Consensus       273 ~eIk~~f---~~p~v~V~nK~D~~~~e~~~~--~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~v~~~a~~~  338 (346)
T COG1084         273 EEIKELF---KAPIVVVINKIDIADEEKLEE--IEASVLEEGGEEPLKISATKGCGLDKLREEVRKTALEP  338 (346)
T ss_pred             HHHHHhc---CCCeEEEEecccccchhHHHH--HHHHHHhhccccccceeeeehhhHHHHHHHHHHHhhch
Confidence            8887764   379999999999876554433  222233334 4488999999999998888777764433

>TIGR00503 prfC peptide chain release factor 3

Probab=98.88  E-value=2.3e-08  Score=78.93  Aligned_cols=76  Identities=21%  Similarity=0.258  Sum_probs=54.3

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ....++...+++++|||||+.+|.......++.+|++|+|+|+++.-. .....++... .   ..++|+++++||+|+.
T Consensus        71 ~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~-~---~~~~PiivviNKiD~~  145 (527)
T TIGR00503        71 SVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVT-R---LRDTPIFTFMNKLDRD  145 (527)
T ss_pred             EEEEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHH-H---hcCCCEEEEEECcccc
Confidence            334455556777889999999887767778899999999999987421 1223333322 2   2568999999999985


Q ss_pred             C
Q psy11289        101 H  101 (159)
Q Consensus       101 ~  101 (159)
                      .
T Consensus       146 ~  146 (527)
T TIGR00503       146 I  146 (527)
T ss_pred             C
Confidence            3

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.87  E-value=2.4e-08  Score=73.36  Aligned_cols=137  Identities=17%  Similarity=0.163  Sum_probs=87.2

Q ss_pred             ccccccccceEEEEEEE-CCeeEEEEEEeCCCcccchH----HHHHH---hhcCCEEEEEEECCChh---hHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEEFSA----MREQY---MRSGEGFLLVFSVTDRN---SFEEIYKFHR   77 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~~~----~~~~~---~~~~~~ii~v~d~~~~~---s~~~~~~~~~   77 (159)
                      .+|+-|+-....-.+.+ .+..+.+  =|+||...-.+    +.-.|   ++.+.++++|.|++..+   ..++......
T Consensus       187 adYpFTTL~PnLGvV~~~~~~sfv~--ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~~~~~dp~~~~~~i~~  264 (369)
T COG0536         187 ADYPFTTLVPNLGVVRVDGGESFVV--ADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSPIDGRDPIEDYQTIRN  264 (369)
T ss_pred             cCCccccccCcccEEEecCCCcEEE--ecCcccccccccCCCccHHHHHHHHhhheeEEEEecCcccCCCHHHHHHHHHH
Confidence            45666665433333333 3444544  99999854322    22233   45789999999998654   3555555566


Q ss_pred             HHHhhc-CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         78 QILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        78 ~i~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ++..+. ...++|.++|+||+|+....+-.......+.+..+.. .+.+||.++.|++++...+.+.+.+..
T Consensus       265 EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         265 ELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             HHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHHHHHHHHhh
Confidence            666663 3457899999999996543322222333444444544 222999999999999999998876654

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.87  E-value=8e-08  Score=71.33  Aligned_cols=55  Identities=18%  Similarity=0.248  Sum_probs=38.7

Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHH-HHHHHHHh
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFH-ELVRIVLL  145 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~-~l~~~~~~  145 (159)
                      .+|+|+++||.|+.....    ....+.... ..+++.+||+.+.++.++.+ .+.+.+.+
T Consensus       214 ~KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         214 SKPMVIAANKADIPDAEN----NISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             CCcEEEEEEHHHccChHH----HHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            479999999999753221    111222233 45699999999999999998 57776643

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.85  E-value=3.9e-08  Score=76.26  Aligned_cols=103  Identities=16%  Similarity=0.146  Sum_probs=65.4

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hH---HHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SF---EEIYKFHRQILRVKDRDEFP-MLMVGNKADLD  100 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~---~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~  100 (159)
                      ....+.|.|+||+.+|.......+..+|++++|+|+++..   .+   ....+-+. +...   .++| +|++.||+|..
T Consensus        83 ~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~-~~~~---~gi~~iiv~vNKmD~~  158 (446)
T PTZ00141         83 PKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHAL-LAFT---LGVKQMIVCINKMDDK  158 (446)
T ss_pred             CCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHH-HHHH---cCCCeEEEEEEccccc
Confidence            3445666999999999777777788999999999998742   11   11111111 2222   4555 67899999953


Q ss_pred             C----cCCC--CHHHHHHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289        101 H----QRQV--SSMDAQNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus       101 ~----~~~~--~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      .    +...  ..++...+....|     ++++++||.+|+|+.+
T Consensus       159 ~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        159 TVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             cchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            2    1111  0223334444444     5699999999999864

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.85  E-value=8.4e-08  Score=78.22  Aligned_cols=100  Identities=19%  Similarity=0.204  Sum_probs=66.0

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+..++.+  +.+|||||+.++...+...++.+|++++|+|+++....... .++..+..    .++|+++++||+|+.
T Consensus        68 ~~~~~~~~~--i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~-~~~~~~~~----~~~p~ivviNK~D~~  140 (689)
T TIGR00484        68 TTVFWKGHR--INIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSE-TVWRQANR----YEVPRIAFVNKMDKT  140 (689)
T ss_pred             EEEEECCeE--EEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHH-HHHHHHHH----cCCCEEEEEECCCCC
Confidence            344455554  56699999999887888889999999999999886544432 22333322    468999999999987


Q ss_pred             CcCCCCHHHHHHHHHHcCCc----EEEeCCCCC
Q psy11289        101 HQRQVSSMDAQNVARQLRIP----YIECSAKVR  129 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~----~~~~sa~~~  129 (159)
                      ...  -.....++...++..    .+++|+..+
T Consensus       141 ~~~--~~~~~~~i~~~l~~~~~~~~ipis~~~~  171 (689)
T TIGR00484       141 GAN--FLRVVNQIKQRLGANAVPIQLPIGAEDN  171 (689)
T ss_pred             CCC--HHHHHHHHHHHhCCCceeEEeccccCCC
Confidence            532  122233444444432    456666554

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.

>PRK12739 elongation factor G; Reviewed

Probab=98.84  E-value=1.2e-07  Score=77.25  Aligned_cols=73  Identities=23%  Similarity=0.301  Sum_probs=53.0

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+..++.++  .++||||+.+|...+...++.+|++++|+|+.+.-.-... ..+..+..    .++|.++++||+|+.
T Consensus        66 ~~~~~~~~~i--~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~----~~~p~iv~iNK~D~~  138 (691)
T PRK12739         66 TTCFWKGHRI--NIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK----YGVPRIVFVNKMDRI  138 (691)
T ss_pred             EEEEECCEEE--EEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH----cCCCEEEEEECCCCC
Confidence            3445566654  5599999998887888889999999999999876433222 22223322    568999999999985

>KOG0090|consensus

Probab=98.83  E-value=7.5e-08  Score=66.42  Aligned_cols=119  Identities=17%  Similarity=0.298  Sum_probs=76.4

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhh---cCCEEEEEEECCC-hhhHHHHHHHHHHHHhhcC--CCCCcEEEEE
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMR---SGEGFLLVFSVTD-RNSFEEIYKFHRQILRVKD--RDEFPMLMVG   94 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~---~~~~ii~v~d~~~-~~s~~~~~~~~~~i~~~~~--~~~~p~ivv~   94 (159)
                      .....+...  +.+.|.||+.+.+.....++.   .+-+++||+|..- +....+...++-.+.-...  ...+|+++++
T Consensus        75 a~~r~gs~~--~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaC  152 (238)
T KOG0090|consen   75 ATYRLGSEN--VTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIAC  152 (238)
T ss_pred             eeEeecCcc--eEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEe
Confidence            334445455  455999999998876666666   7999999999863 3445556655555555442  2467899999


Q ss_pred             eCCCCCCcCCCC------HHHH----------------------------HH--HHH--HcCCcEEEeCCCCCCCHHHHH
Q psy11289         95 NKADLDHQRQVS------SMDA----------------------------QN--VAR--QLRIPYIECSAKVRINVDQAF  136 (159)
Q Consensus        95 nK~D~~~~~~~~------~~~~----------------------------~~--~~~--~~~~~~~~~sa~~~~~i~~~~  136 (159)
                      ||.|+...+...      +.|.                            ..  |+.  ...+.+.++|++++ +++++-
T Consensus       153 NKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~  231 (238)
T KOG0090|consen  153 NKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWE  231 (238)
T ss_pred             cchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-ChHHHH
Confidence            999984321100      0000                            00  111  11245889999998 899999


Q ss_pred             HHHHHH
Q psy11289        137 HELVRI  142 (159)
Q Consensus       137 ~~l~~~  142 (159)
                      +|+-+.
T Consensus       232 ~wi~~~  237 (238)
T KOG0090|consen  232 SWIREA  237 (238)
T ss_pred             HHHHHh
Confidence            998764

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.82  E-value=3.7e-08  Score=72.72  Aligned_cols=105  Identities=20%  Similarity=0.144  Sum_probs=72.4

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      ..+.+++.+  -||||++.|...+-.-...||..|+++|+..  ......+-...|....+.  ..+++..||+|+.+=.
T Consensus        82 sT~KRkFIi--ADTPGHeQYTRNMaTGASTadlAIlLVDAR~--Gvl~QTrRHs~I~sLLGI--rhvvvAVNKmDLvdy~  155 (431)
T COG2895          82 STEKRKFII--ADTPGHEQYTRNMATGASTADLAILLVDARK--GVLEQTRRHSFIASLLGI--RHVVVAVNKMDLVDYS  155 (431)
T ss_pred             ccccceEEE--ecCCcHHHHhhhhhcccccccEEEEEEecch--hhHHHhHHHHHHHHHhCC--cEEEEEEeeecccccC
Confidence            335556544  9999999998766666678999999999954  233333334455555432  4789999999996533


Q ss_pred             CCCHH----HHHHHHHHcCC---cEEEeCCCCCCCHHH
Q psy11289        104 QVSSM----DAQNVARQLRI---PYIECSAKVRINVDQ  134 (159)
Q Consensus       104 ~~~~~----~~~~~~~~~~~---~~~~~sa~~~~~i~~  134 (159)
                      +-..+    +-..|++++++   .++++||+.|+|+-.
T Consensus       156 e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         156 EEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcceEEechhccCCcccc
Confidence            22222    33567888885   499999999998753

>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=98.81  E-value=3.9e-08  Score=67.03  Aligned_cols=72  Identities=19%  Similarity=0.482  Sum_probs=49.8

Q ss_pred             EEEEEeCCCcccchHHH-HH--HhhcCCEEEEEEECCC-hhhHHHHHHHHHHHHhhcC--CCCCcEEEEEeCCCCCCc
Q psy11289         31 RLDILDTAGQEEFSAMR-EQ--YMRSGEGFLLVFSVTD-RNSFEEIYKFHRQILRVKD--RDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~-~~--~~~~~~~ii~v~d~~~-~~s~~~~~~~~~~i~~~~~--~~~~p~ivv~nK~D~~~~  102 (159)
                      .+.+.|+||+.+.+... ..  +...+.+||||.|.+. +..+.++.+++..++....  ...+|+++++||.|+...
T Consensus        50 ~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   50 KLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             CECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             EEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            45669999999987633 33  4789999999999974 5566676666666555443  346899999999998653

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.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=98.79  E-value=3.2e-07  Score=66.72  Aligned_cols=99  Identities=13%  Similarity=0.180  Sum_probs=64.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      ..+.+|||||+.+|...+...++.+|++++|+|+++........-| ..+..    .++|.++++||+|.....  ..+.
T Consensus        64 ~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~----~~~p~iivvNK~D~~~~~--~~~~  136 (268)
T cd04170          64 HKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLW-EFADE----AGIPRIIFINKMDRERAD--FDKT  136 (268)
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH----cCCCEEEEEECCccCCCC--HHHH
Confidence            4566799999998877888899999999999999986554333222 22222    468999999999986431  1223


Q ss_pred             HHHHHHHcCCcEEE--eCCCCCCCHHHH
Q psy11289        110 AQNVARQLRIPYIE--CSAKVRINVDQA  135 (159)
Q Consensus       110 ~~~~~~~~~~~~~~--~sa~~~~~i~~~  135 (159)
                      ...+...++.+++.  +...+|.++..+
T Consensus       137 ~~~l~~~~~~~~~~~~ip~~~~~~~~~~  164 (268)
T cd04170         137 LAALQEAFGRPVVPLQLPIGEGDDFKGV  164 (268)
T ss_pred             HHHHHHHhCCCeEEEEecccCCCceeEE
Confidence            34444556655443  344555444333

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

>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=98.79  E-value=1.3e-08  Score=77.81  Aligned_cols=138  Identities=19%  Similarity=0.192  Sum_probs=91.9

Q ss_pred             cccccccccccccceE----------EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh------
Q psy11289          4 ESYFVTDYDPTIEDSY----------TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR------   66 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~----------~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~------   66 (159)
                      ++-+.++|.||..|..          ...+.+ ++..  +.++|+||+...+..|..++.++++||||+++++-      
T Consensus       201 ~RI~~~~Y~PT~~DIl~~r~~T~Gi~e~~f~~~~~~~--~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~e  278 (389)
T PF00503_consen  201 DRIAQPDYIPTDEDILRCRVKTTGITEIDFNFSGSRK--FRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYE  278 (389)
T ss_dssp             HHHHSTTB---HHHHHHS----SSEEEEEEEE-TTEE--EEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESS
T ss_pred             hhhcCCCccCCCCCeeeecCCCCCeeEEEEEeecccc--cceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcc
Confidence            4456778888877543          122333 3334  46699999988888999999999999999998652      


Q ss_pred             ----hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC------c----------C--CCCHHHHHHHHHHc-------
Q psy11289         67 ----NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH------Q----------R--QVSSMDAQNVARQL-------  117 (159)
Q Consensus        67 ----~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~------~----------~--~~~~~~~~~~~~~~-------  117 (159)
                          ..+.+....+..+.......++|++|+.||.|+-.      .          .  .-..+.+..+....       
T Consensus       279 d~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~  358 (389)
T PF00503_consen  279 DPNTNRLHESLNLFESICNNPWFKNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRN  358 (389)
T ss_dssp             STTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHST
T ss_pred             cchHHHHHHHHHHHHHHHhCcccccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccC
Confidence                23555566667776655556899999999999721      0          1  12345555544321       


Q ss_pred             -----CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        118 -----RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       118 -----~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                           .+.++.++|.+..++..+|+.+.+.+
T Consensus       359 ~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  359 NSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             TTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             CCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence                 12367899999999999999887653

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 ....

>KOG1707|consensus

Probab=98.78  E-value=8.8e-08  Score=74.64  Aligned_cols=139  Identities=20%  Similarity=0.267  Sum_probs=99.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|..++.++....+ ...+...|..-.+.+-|++.. ....+.+.. ..+|+++++||.+++.||..+...++.-..
T Consensus       446 lgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~p~sf~~~a~v~~~~~~  523 (625)
T KOG1707|consen  446 LGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSNPRSFEYLAEVYNKYFD  523 (625)
T ss_pred             hccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCCchHHHHHHHHHHHhhh
Confidence            45666667778887776 445555677777888998865 222222222 678999999999999999988765443322


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                         ....|+++|+.|+|+.+..+....+..+++.+++++ .+..|.++... .++|..|..+..-..
T Consensus       524 ---~~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~~Ph  586 (625)
T KOG1707|consen  524 ---LYKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQYPH  586 (625)
T ss_pred             ---ccCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhhCCC
Confidence               267899999999999654432222337999999987 67778875334 899999988877555

>KOG1191|consensus

Probab=98.73  E-value=8.6e-08  Score=73.41  Aligned_cols=143  Identities=20%  Similarity=0.225  Sum_probs=95.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCccc-chHH--------HHHHhhcCCEEEEEEEC--CChhhHHHH
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE-FSAM--------REQYMRSGEGFLLVFSV--TDRNSFEEI   72 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~--------~~~~~~~~~~ii~v~d~--~~~~s~~~~   72 (159)
                      +...+...++|+.|.....++++|.++.+  .||+|... -...        ...-++.+|++++|+|+  ++-++-..+
T Consensus       292 drsIVSpv~GTTRDaiea~v~~~G~~v~L--~DTAGiRe~~~~~iE~~gI~rA~k~~~~advi~~vvda~~~~t~sd~~i  369 (531)
T KOG1191|consen  292 DRSIVSPVPGTTRDAIEAQVTVNGVPVRL--SDTAGIREESNDGIEALGIERARKRIERADVILLVVDAEESDTESDLKI  369 (531)
T ss_pred             CceEeCCCCCcchhhheeEeecCCeEEEE--EeccccccccCChhHHHhHHHHHHHHhhcCEEEEEecccccccccchHH
Confidence            45677888999999999999999999877  99999855 1111        12336789999999999  444443343


Q ss_pred             HHHHHHHHhhc-----CCCCCcEEEEEeCCCCCCc-CCCCHHHHHHHHHHcC---Cc-EEEeCCCCCCCHHHHHHHHHHH
Q psy11289         73 YKFHRQILRVK-----DRDEFPMLMVGNKADLDHQ-RQVSSMDAQNVARQLR---IP-YIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        73 ~~~~~~i~~~~-----~~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~---~~-~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .+.+.....-.     .....|++++.||.|+... .+.+. ....+....+   .+ +.++|++++.|+..+.+.+.+.
T Consensus       370 ~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~-~~~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~  448 (531)
T KOG1191|consen  370 ARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTK-IPVVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNI  448 (531)
T ss_pred             HHHHHHhccceEEEeccccccceEEEechhhccCccccccC-CceeccccccCcccceEEEeeechhhhHHHHHHHHHHH
Confidence            33333322211     1123689999999998654 22222 1122222222   34 5669999999999999999998


Q ss_pred             HHhcccc
Q psy11289        143 VLLHTKQ  149 (159)
Q Consensus       143 ~~~~~~~  149 (159)
                      +......
T Consensus       449 ~~~~~~~  455 (531)
T KOG1191|consen  449 VERLVVS  455 (531)
T ss_pred             HHHhhcC
Confidence            8776653

>cd01858 NGP_1 NGP-1

Probab=98.72  E-value=6.4e-08  Score=64.82  Aligned_cols=88  Identities=11%  Similarity=0.121  Sum_probs=56.2

Q ss_pred             HhhcCCEEEEEEECCChhh--HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289         50 YMRSGEGFLLVFSVTDRNS--FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        50 ~~~~~~~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      .++++|.+++|.|++++..  ...+.+++.   ..  ..++|+++|.||+|+.++..+ ......+.+.+....+.+||+
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~---~~--~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~   78 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLK---KE--KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASIN   78 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHH---hc--cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeecc
Confidence            4578999999999998743  233333322   21  245899999999998542211 111122222222225789999


Q ss_pred             CCCCHHHHHHHHHHHH
Q psy11289        128 VRINVDQAFHELVRIV  143 (159)
Q Consensus       128 ~~~~i~~~~~~l~~~~  143 (159)
                      .+.|++++++.+....
T Consensus        79 ~~~~~~~L~~~l~~~~   94 (157)
T cd01858          79 NPFGKGSLIQLLRQFS   94 (157)
T ss_pred             ccccHHHHHHHHHHHH
Confidence            9999999999987654

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.72  E-value=7.3e-08  Score=64.43  Aligned_cols=85  Identities=13%  Similarity=0.036  Sum_probs=55.6

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289         55 EGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus        55 ~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                      |.+++|+|+.++.+...  .++..  ......++|+++|.||+|+.....+ .+-...+....+.+++.+||++|.|+++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~--~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~   75 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER--VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEK   75 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH--HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhh
Confidence            68999999998765542  22321  1111256899999999998542211 0111123333356689999999999999


Q ss_pred             HHHHHHHHHH
Q psy11289        135 AFHELVRIVL  144 (159)
Q Consensus       135 ~~~~l~~~~~  144 (159)
                      +.+.+.+...
T Consensus        76 L~~~i~~~~~   85 (155)
T cd01849          76 KESAFTKQTN   85 (155)
T ss_pred             HHHHHHHHhH
Confidence            9999877643

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.

>KOG1423|consensus

Probab=98.70  E-value=4e-07  Score=66.21  Aligned_cols=126  Identities=13%  Similarity=0.105  Sum_probs=74.8

Q ss_pred             ccccceEEEEEEECCeeEEEEEEeCCCcccc------hHH------HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289         13 PTIEDSYTKQCVIDDIPARLDILDTAGQEEF------SAM------REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus        13 pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~------~~~------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      -|+.......++-+..+  +.|+||||.-.-      ..+      -...+.+||.+++++|++++...-+ .+.+..+.
T Consensus       105 ~TTr~~ilgi~ts~eTQ--lvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~-p~vl~~l~  181 (379)
T KOG1423|consen  105 HTTRHRILGIITSGETQ--LVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLH-PRVLHMLE  181 (379)
T ss_pred             cceeeeeeEEEecCceE--EEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccC-hHHHHHHH
Confidence            33333344444444444  566999996321      111      1223578999999999997433222 12233344


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcC-------------CCCHHHHHHHHHHc-------------CC----cEEEeCCCCCC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQR-------------QVSSMDAQNVARQL-------------RI----PYIECSAKVRI  130 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~-------------~~~~~~~~~~~~~~-------------~~----~~~~~sa~~~~  130 (159)
                      .+   ..+|.++|-||.|....+             .++.- ..+..++.             |.    .+|.+||++|.
T Consensus       182 ~y---s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~-kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~  257 (379)
T KOG1423|consen  182 EY---SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKL-KLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGE  257 (379)
T ss_pred             HH---hcCCceeeccchhcchhhhHHhhhHHhccccccchh-hhhHHHHhccCCcccccccccCcccceeEEEEeccccc
Confidence            44   567999999999975332             11110 01111111             12    27999999999


Q ss_pred             CHHHHHHHHHHHHHh
Q psy11289        131 NVDQAFHELVRIVLL  145 (159)
Q Consensus       131 ~i~~~~~~l~~~~~~  145 (159)
                      ||+++-++++.++..
T Consensus       258 GikdlkqyLmsqa~~  272 (379)
T KOG1423|consen  258 GIKDLKQYLMSQAPP  272 (379)
T ss_pred             CHHHHHHHHHhcCCC
Confidence            999999999987643

>KOG0705|consensus

Probab=98.70  E-value=1.9e-07  Score=72.53  Aligned_cols=139  Identities=22%  Similarity=0.460  Sum_probs=105.5

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|..+..|. +..|.+.+.+++....+.+.|.+|..     -..|...+|++||||.+.+..+|+.+..+...+..+
T Consensus        51 ltgty~~~e~~e-~~~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~  124 (749)
T KOG0705|consen   51 LTGTYTQDESPE-GGRFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSY  124 (749)
T ss_pred             ccceeccccCCc-CccceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEEEEEeccccCHHHHHHHHhhcccc
Confidence            444444443333 56778888889988888899999842     246778899999999999999999998888787776


Q ss_pred             cCCCCCcEEEEEeCCCCC--CcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .....+|.++++++.-..  ..+.+..+.++.++.++ .+.+++.++..|.++..+|+.+...+....
T Consensus       125 r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~~  192 (749)
T KOG0705|consen  125 RNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQLR  192 (749)
T ss_pred             cccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHHH
Confidence            665678889888775432  23444555666665554 588999999999999999999998777553

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.68  E-value=1.5e-07  Score=68.74  Aligned_cols=92  Identities=15%  Similarity=0.091  Sum_probs=62.1

Q ss_pred             HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      .....++.+|.+++|.|+.++.+....  ++.   +..  .+.|+++|.||+|+.+....  ....++.+..+.+++.+|
T Consensus        14 ~~~~~l~~aDvVl~V~Dar~p~~~~~~--~i~---~~l--~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~iS   84 (276)
T TIGR03596        14 EIKEKLKLVDVVIEVLDARIPLSSRNP--MID---EIR--GNKPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAIN   84 (276)
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCCCCh--hHH---HHH--CCCCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEEE
Confidence            455667899999999999877553321  111   111  35799999999998542111  111122233567789999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc
Q psy11289        126 AKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       126 a~~~~~i~~~~~~l~~~~~~~  146 (159)
                      |+++.|+.++.+.+.+.+...
T Consensus        85 a~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        85 AKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             CCCcccHHHHHHHHHHHHHHh
Confidence            999999999999888776543

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.

>cd01856 YlqF YlqF

Probab=98.67  E-value=1e-07  Score=64.72  Aligned_cols=93  Identities=13%  Similarity=0.051  Sum_probs=62.2

Q ss_pred             cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcE
Q psy11289         42 EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY  121 (159)
Q Consensus        42 ~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~  121 (159)
                      +........++++|.+++|+|++++...... .    +....  .+.|+++|.||+|+.+...  .....++.+..+..+
T Consensus         8 ~~~~~~~~~i~~aD~il~v~D~~~~~~~~~~-~----i~~~~--~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~v   78 (171)
T cd01856           8 KALRQIKEKLKLVDLVIEVRDARIPLSSRNP-L----LEKIL--GNKPRIIVLNKADLADPKK--TKKWLKYFESKGEKV   78 (171)
T ss_pred             HHHHHHHHHHhhCCEEEEEeeccCccCcCCh-h----hHhHh--cCCCEEEEEehhhcCChHH--HHHHHHHHHhcCCeE
Confidence            3344556678899999999999876543221 1    22222  3579999999999854211  111112223334568


Q ss_pred             EEeCCCCCCCHHHHHHHHHHHH
Q psy11289        122 IECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       122 ~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +.+||+++.|++++.+.+...+
T Consensus        79 i~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          79 LFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             EEEECCCcccHHHHHHHHHHHH
Confidence            9999999999999999988865

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=98.67  E-value=1.5e-07  Score=61.99  Aligned_cols=76  Identities=14%  Similarity=0.134  Sum_probs=52.4

Q ss_pred             HHHhhcCCEEEEEEECCChhhHH--HHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         48 EQYMRSGEGFLLVFSVTDRNSFE--EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        48 ~~~~~~~~~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      ...++++|++++|+|+.++.+..  .+.+|+...    . .++|+++|+||+|+.++..  .....++.+..+.+++++|
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iS   78 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----D-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFS   78 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----c-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEE
Confidence            45568899999999999876544  344444322    1 4689999999999854322  2233445556678899999


Q ss_pred             CCCCC
Q psy11289        126 AKVRI  130 (159)
Q Consensus       126 a~~~~  130 (159)
                      |+++.
T Consensus        79 a~~~~   83 (141)
T cd01857          79 ALKEN   83 (141)
T ss_pred             ecCCC
Confidence            98765

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.62  E-value=3.9e-07  Score=68.64  Aligned_cols=108  Identities=17%  Similarity=0.181  Sum_probs=68.5

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhh---H--HHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS---F--EEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s---~--~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .-.+..+.|.|+||+..|-+.+-.-+..||+.|+|+|+.+.+.   |  ....+-...+....+  -..+|++.||+|..
T Consensus        81 et~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG--i~~lIVavNKMD~v  158 (428)
T COG5256          81 ETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG--IKQLIVAVNKMDLV  158 (428)
T ss_pred             ecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC--CceEEEEEEccccc
Confidence            3344456779999988887766666778999999999988642   1  111222223333332  23688899999986


Q ss_pred             CcCCCCHHHH----HHHHHHcC-----CcEEEeCCCCCCCHHHH
Q psy11289        101 HQRQVSSMDA----QNVARQLR-----IPYIECSAKVRINVDQA  135 (159)
Q Consensus       101 ~~~~~~~~~~----~~~~~~~~-----~~~~~~sa~~~~~i~~~  135 (159)
                      +=++-..++.    ..+.+..|     ++|+++|+..|+|+.+.
T Consensus       159 ~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         159 SWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             ccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            4111112222    22444444     56999999999997654

>PRK13796 GTPase YqeH; Provisional

Probab=98.61  E-value=5.2e-07  Score=68.37  Aligned_cols=93  Identities=23%  Similarity=0.278  Sum_probs=62.0

Q ss_pred             cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH----HHHHHc
Q psy11289         42 EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ----NVARQL  117 (159)
Q Consensus        42 ~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~----~~~~~~  117 (159)
                      .|...........+.+++|+|+.|..     ..|...+.+..  .+.|+++|+||+|+.. .....+...    .+++.+
T Consensus        58 ~~~~~l~~i~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~--~~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~  129 (365)
T PRK13796         58 DFLKLLNGIGDSDALVVNVVDIFDFN-----GSWIPGLHRFV--GNNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKEL  129 (365)
T ss_pred             HHHHHHHhhcccCcEEEEEEECccCC-----CchhHHHHHHh--CCCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhc
Confidence            34443433333334999999998743     23444555543  3679999999999964 233333333    345566


Q ss_pred             CC---cEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        118 RI---PYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       118 ~~---~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+   .++.+||++|.|++++++.+.+.
T Consensus       130 g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        130 GLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            76   58999999999999999998764

>cd01850 CDC_Septin CDC/Septin

Probab=98.59  E-value=2.7e-07  Score=67.42  Aligned_cols=113  Identities=14%  Similarity=0.121  Sum_probs=66.3

Q ss_pred             cccccc-ceEEEEEEECCeeEEEEEEeCCCcccchH---HHH-----------------------HHhh--cCCEEEEEE
Q psy11289         11 YDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSA---MRE-----------------------QYMR--SGEGFLLVF   61 (159)
Q Consensus        11 ~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~---~~~-----------------------~~~~--~~~~ii~v~   61 (159)
                      ..+|+. ..+...+..+|.++++.+|||||......   .|.                       ..+.  .+|++++++
T Consensus        43 ~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i  122 (276)
T cd01850          43 IDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFI  122 (276)
T ss_pred             cCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEE
Confidence            455655 33456667788889999999999533210   010                       1122  367888888


Q ss_pred             ECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC--CCHHHHHHHHHHcCCcEEEeCCCC
Q psy11289         62 SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ--VSSMDAQNVARQLRIPYIECSAKV  128 (159)
Q Consensus        62 d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~sa~~  128 (159)
                      +.+.. .+....  +..+....  ..+|+++|+||+|+....+  ...+...+.+..++++++......
T Consensus       123 ~~~~~-~l~~~D--~~~lk~l~--~~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         123 EPTGH-GLKPLD--IEFMKRLS--KRVNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             eCCCC-CCCHHH--HHHHHHHh--ccCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            77641 111110  12222222  2589999999999854222  223445666777889988776643

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.59  E-value=2.4e-07  Score=75.87  Aligned_cols=83  Identities=19%  Similarity=0.228  Sum_probs=58.0

Q ss_pred             ccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE
Q psy11289         13 PTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML   91 (159)
Q Consensus        13 pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i   91 (159)
                      .|+...+ +.....++..+++.+|||||+.+|.......++.+|++++|+|+.+.-..+...-| .....    .+.|.+
T Consensus        68 ~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~~~-~~~~~----~~~p~i  142 (720)
T TIGR00490        68 ITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTETVL-RQALK----ENVKPV  142 (720)
T ss_pred             chhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHHHHH-HHHHH----cCCCEE
Confidence            3555333 33445666778888999999999988888889999999999999874322221111 22222    456889


Q ss_pred             EEEeCCCCC
Q psy11289         92 MVGNKADLD  100 (159)
Q Consensus        92 vv~nK~D~~  100 (159)
                      +++||+|..
T Consensus       143 vviNKiD~~  151 (720)
T TIGR00490       143 LFINKVDRL  151 (720)
T ss_pred             EEEEChhcc
Confidence            999999974

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.58  E-value=1e-06  Score=64.54  Aligned_cols=129  Identities=24%  Similarity=0.237  Sum_probs=85.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchH-------HHHHHhhcCCEEEEEEECCChhh-HHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA-------MREQYMRSGEGFLLVFSVTDRNS-FEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-------~~~~~~~~~~~ii~v~d~~~~~s-~~~~~~~~~~i   79 (159)
                      ..+|+-|+-......+..+|-+  +|+.|+||.-.-.+       ..-+..++||.+++|.|+..+.+ .+.+.+.+...
T Consensus        90 va~y~FTTl~~VPG~l~Y~ga~--IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld~~~~~~~~~~i~~ELe~~  167 (365)
T COG1163          90 VADYPFTTLEPVPGMLEYKGAQ--IQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLDVFEDPHHRDIIERELEDV  167 (365)
T ss_pred             ccccCceecccccceEeecCce--EEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEecCCChhHHHHHHHHHHhc
Confidence            4567777766666666667766  56699998743222       23344789999999999986543 32222221111


Q ss_pred             ----------------------------------------Hh-h-----------------------cCCCCCcEEEEEe
Q psy11289         80 ----------------------------------------LR-V-----------------------KDRDEFPMLMVGN   95 (159)
Q Consensus        80 ----------------------------------------~~-~-----------------------~~~~~~p~ivv~n   95 (159)
                                                              ++ +                       ....-+|.++|.|
T Consensus       168 GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvTlDd~id~l~~nrvY~p~l~v~N  247 (365)
T COG1163         168 GIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIREDVTLDDLIDALEGNRVYKPALYVVN  247 (365)
T ss_pred             CeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEecCCcHHHHHHHHhhcceeeeeEEEEe
Confidence                                                    00 0                       0012479999999


Q ss_pred             CCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         96 KADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        96 K~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      |.|+..     .++...+.+..  +.+.+||..+.|++++.+.+.+.+.-
T Consensus       248 KiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~l  290 (365)
T COG1163         248 KIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLGL  290 (365)
T ss_pred             cccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhCe
Confidence            999865     34444555444  79999999999999999999988753

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.54  E-value=3.6e-07  Score=67.09  Aligned_cols=92  Identities=14%  Similarity=0.107  Sum_probs=62.1

Q ss_pred             HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      .....++.+|++|+|+|+.++.+.+.  .++..   ..  .+.|.++|.||+|+.+...  .+....+.+..+.+++.+|
T Consensus        17 ~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~---~~--~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vS   87 (287)
T PRK09563         17 EIKENLKLVDVVIEVLDARIPLSSEN--PMIDK---II--GNKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAIN   87 (287)
T ss_pred             HHHHHhhhCCEEEEEEECCCCCCCCC--hhHHH---Hh--CCCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEE
Confidence            34556789999999999988754332  11111   11  2579999999999853211  1112222334467789999


Q ss_pred             CCCCCCHHHHHHHHHHHHHhc
Q psy11289        126 AKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       126 a~~~~~i~~~~~~l~~~~~~~  146 (159)
                      |+++.|+.++.+.+...+...
T Consensus        88 a~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         88 AKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             CCCcccHHHHHHHHHHHHHHH
Confidence            999999999999888776543

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.53  E-value=9.4e-07  Score=61.39  Aligned_cols=109  Identities=16%  Similarity=0.156  Sum_probs=65.2

Q ss_pred             EEEEEeCCCcccchHHHHHH-----hhcCCEEEEEEECCChhhHHHHH-HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         31 RLDILDTAGQEEFSAMREQY-----MRSGEGFLLVFSVTDRNSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~-----~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      .+.+||++|..........|     +.++|.++++.+ .+   +.... .|++.+.+    .+.|+++|+||+|+.....
T Consensus        53 ~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~-~~---~~~~d~~~~~~l~~----~~~~~ilV~nK~D~~~~~~  124 (197)
T cd04104          53 NVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISS-TR---FSSNDVKLAKAIQC----MGKKFYFVRTKVDRDLSNE  124 (197)
T ss_pred             CceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeC-CC---CCHHHHHHHHHHHH----hCCCEEEEEecccchhhhh
Confidence            46779999985432222233     567899888743 22   33332 44454544    2569999999999842111


Q ss_pred             ----C---CHHH----HHHHHH----HcC--C-cEEEeCCC--CCCCHHHHHHHHHHHHHhcc
Q psy11289        105 ----V---SSMD----AQNVAR----QLR--I-PYIECSAK--VRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       105 ----~---~~~~----~~~~~~----~~~--~-~~~~~sa~--~~~~i~~~~~~l~~~~~~~~  147 (159)
                          .   ..++    .++.+.    ..+  . +++.+|+.  .+.|+..+.+.++..+.+.+
T Consensus       125 ~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~  187 (197)
T cd04104         125 QRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHK  187 (197)
T ss_pred             hccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHH
Confidence                0   0111    111111    222  2 48999998  57899999999998886543

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

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.52  E-value=6.1e-07  Score=57.15  Aligned_cols=77  Identities=25%  Similarity=0.338  Sum_probs=56.0

Q ss_pred             HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      ....+.+.+++++.||+.++.+++..+  |...+.... ..+.|.++++||.|+.+...+..++..        +++++|
T Consensus        39 ~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~-k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s  107 (124)
T smart00010       39 YDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGN-KSDLPILVGGNRDVLEEERQVATEEGL--------EFAETS  107 (124)
T ss_pred             ccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcC-CCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHh
Confidence            345667889999999999999999776  777765543 256889999999998543344433332        356788


Q ss_pred             CCCCCCHH
Q psy11289        126 AKVRINVD  133 (159)
Q Consensus       126 a~~~~~i~  133 (159)
                      +++|.|+.
T Consensus       108 ~~~~~~~~  115 (124)
T smart00010      108 AKTPEEGE  115 (124)
T ss_pred             CCCcchhh
Confidence            89998874

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.52  E-value=1.7e-06  Score=60.30  Aligned_cols=102  Identities=17%  Similarity=0.163  Sum_probs=63.4

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA  110 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  110 (159)
                      ...+.++.|..-.....+.   -++.++.|+|+.+.++...  .+..++       ...-++++||+|+.+......+..
T Consensus        93 D~iiIEt~G~~l~~~~~~~---l~~~~i~vvD~~~~~~~~~--~~~~qi-------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        93 EMVFIESGGDNLSATFSPE---LADLTIFVIDVAAGDKIPR--KGGPGI-------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CEEEEECCCCCcccccchh---hhCcEEEEEEcchhhhhhh--hhHhHh-------hhccEEEEEhhhccccccccHHHH
Confidence            3445788773211112222   2588999999988666322  111111       123388999999874322223333


Q ss_pred             HHHHHH--cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        111 QNVARQ--LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       111 ~~~~~~--~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .+..+.  .+.+++++||++|.|++++|+++.+.+.
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            444444  3578999999999999999999987653

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.

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.51  E-value=4.3e-06  Score=57.51  Aligned_cols=108  Identities=18%  Similarity=0.257  Sum_probs=71.4

Q ss_pred             EEEEeCCCc----------ccchHHHHHHhh---cCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         32 LDILDTAGQ----------EEFSAMREQYMR---SGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        32 ~~l~D~~g~----------~~~~~~~~~~~~---~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      +.+.|.||-          +++..+...|++   +-.+++++.|+..+-.-.+. ..++.+.+    .++|+++++||+|
T Consensus        72 ~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~~L~~vvlliD~r~~~~~~D~-em~~~l~~----~~i~~~vv~tK~D  146 (200)
T COG0218          72 LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRANLKGVVLLIDARHPPKDLDR-EMIEFLLE----LGIPVIVVLTKAD  146 (200)
T ss_pred             EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhchhheEEEEEEECCCCCcHHHH-HHHHHHHH----cCCCeEEEEEccc
Confidence            556999983          455667777775   35788888999886544332 12222222    6789999999999


Q ss_pred             CCCcCCCCHHHHHHHHHHcC----Cc--EEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         99 LDHQRQVSSMDAQNVARQLR----IP--YIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~~~----~~--~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .....+.. ......++.++    ..  ++..|+.++.|++++...|.+.+..
T Consensus       147 Ki~~~~~~-k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         147 KLKKSERN-KQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             cCChhHHH-HHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhhc
Confidence            76543332 12233343332    22  7888999999999999998887643

>KOG1144|consensus

Probab=98.51  E-value=4e-07  Score=72.94  Aligned_cols=108  Identities=20%  Similarity=0.215  Sum_probs=75.2

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--  106 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--  106 (159)
                      +.++||||++.|..+.......||.+|+|+|+-+   |.+.+.+.    .+    ...++|+||..||+|..-....+  
T Consensus       542 ~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~----lL----R~rktpFivALNKiDRLYgwk~~p~  613 (1064)
T KOG1144|consen  542 LLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESIN----LL----RMRKTPFIVALNKIDRLYGWKSCPN  613 (1064)
T ss_pred             eEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHH----HH----HhcCCCeEEeehhhhhhcccccCCC
Confidence            5669999999999999999999999999999976   44444431    12    12678999999999973211100  


Q ss_pred             --H--------------------HHHHHHHHH-cC-------------CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        107 --S--------------------MDAQNVARQ-LR-------------IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       107 --~--------------------~~~~~~~~~-~~-------------~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                        .                    ....+|+++ ++             +.++++||.+|+||.+++-+|++.....+
T Consensus       614 ~~i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  614 APIVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             chHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence              0                    011122221 11             24789999999999999999988765443

>KOG1490|consensus

Probab=98.50  E-value=1.2e-06  Score=67.53  Aligned_cols=118  Identities=13%  Similarity=0.114  Sum_probs=85.0

Q ss_pred             EEEEEEeCCCcccchH---------HHHHHhhcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         30 ARLDILDTAGQEEFSA---------MREQYMRSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~---------~~~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      ...|+.||||.-+..-         ......+=-.+++++.|++..  -|......+++.|....  .+.|+|+|+||+|
T Consensus       215 lrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLF--aNK~~IlvlNK~D  292 (620)
T KOG1490|consen  215 LRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLF--ANKVTILVLNKID  292 (620)
T ss_pred             eeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHh--cCCceEEEeeccc
Confidence            4567799999754311         112222334789999999875  45566567777777765  6899999999999


Q ss_pred             CCCcCCCCHHHHHH---HHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         99 LDHQRQVSSMDAQN---VARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        99 ~~~~~~~~~~~~~~---~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      +-....++.+...-   +...-+++++++|+.+..|+.++-..++..++..+..
T Consensus       293 ~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa~RVE  346 (620)
T KOG1490|consen  293 AMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEALLAARVE  346 (620)
T ss_pred             ccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHHHHHHHHH
Confidence            98777777655332   2233348999999999999999999999888766543

>PRK01889 GTPase RsgA; Reviewed

Probab=98.48  E-value=8.7e-07  Score=66.95  Aligned_cols=83  Identities=17%  Similarity=0.125  Sum_probs=58.4

Q ss_pred             hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-HcCCcEEEeCCCCC
Q psy11289         51 MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVR  129 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~  129 (159)
                      ..++|.+++|++++.+-....+.+++..+..    .++|.++|.||+|+.+..   .+....+.. ..+++++.+|++++
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~----~~i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~Vi~vSa~~g  182 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWE----SGAEPVIVLTKADLCEDA---EEKIAEVEALAPGVPVLAVSALDG  182 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHH----cCCCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcEEEEECCCC
Confidence            5789999999999754444455555544433    567889999999996431   111222222 34788999999999


Q ss_pred             CCHHHHHHHHH
Q psy11289        130 INVDQAFHELV  140 (159)
Q Consensus       130 ~~i~~~~~~l~  140 (159)
                      .|++++..++-
T Consensus       183 ~gl~~L~~~L~  193 (356)
T PRK01889        183 EGLDVLAAWLS  193 (356)
T ss_pred             ccHHHHHHHhh
Confidence            99999888774

>KOG0099|consensus

Probab=98.45  E-value=1.3e-06  Score=62.40  Aligned_cols=139  Identities=16%  Similarity=0.176  Sum_probs=93.6

Q ss_pred             cccccccccceE----------EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh----------h
Q psy11289          8 VTDYDPTIEDSY----------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR----------N   67 (159)
Q Consensus         8 ~~~~~pt~~~~~----------~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----------~   67 (159)
                      ..+|.|+..+..          ...+.++.  +.++.+|+||+..-+..|-..+.+..++|||...++-          .
T Consensus       172 ~~~Y~Ps~qDiLrcRvlTsGIfet~FqVdk--v~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qN  249 (379)
T KOG0099|consen  172 QADYVPSDQDILRCRVLTSGIFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQN  249 (379)
T ss_pred             ccCCCCcHHHHHHhhhhccceeeEEEeccc--cceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchh
Confidence            467888876443          22233333  4466799999998888999999999999999987652          2


Q ss_pred             hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc----------------------------CCCCHHHH--HHHHHH-
Q psy11289         68 SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ----------------------------RQVSSMDA--QNVARQ-  116 (159)
Q Consensus        68 s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~----------------------------~~~~~~~~--~~~~~~-  116 (159)
                      .+++...++..+.+......+.+|+..||.|+..+                            ...++.-.  +-+.+. 
T Consensus       250 RL~EaL~LFksiWnNRwL~tisvIlFLNKqDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~  329 (379)
T KOG0099|consen  250 RLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDE  329 (379)
T ss_pred             HHHHHHHHHHHHHhhhHHhhhheeEEecHHHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhh
Confidence            45555667777777666677899999999998210                            11111111  111111 


Q ss_pred             ------------cCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        117 ------------LRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       117 ------------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                                  +-|-++.++|.+..+|..+|+..-..+.+...
T Consensus       330 FlRiSta~~Dg~h~CYpHFTcAvDTenIrrVFnDcrdiIqr~hl  373 (379)
T KOG0099|consen  330 FLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHL  373 (379)
T ss_pred             HhhhccccCCCceecccceeEeechHHHHHHHHHHHHHHHHHHH
Confidence                        01446788999999999999998887766543

>PRK00007 elongation factor G; Reviewed

Probab=98.44  E-value=4.1e-06  Score=68.53  Aligned_cols=101  Identities=20%  Similarity=0.234  Sum_probs=64.3

Q ss_pred             EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         20 TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        20 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      ...+.+++.+  +.+.||||+.+|.......++.+|++++|+|+...-..+... .+..+.+    .++|.++++||+|+
T Consensus        67 ~~~~~~~~~~--~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~~----~~~p~iv~vNK~D~  139 (693)
T PRK00007         67 ATTCFWKDHR--INIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQADK----YKVPRIAFVNKMDR  139 (693)
T ss_pred             EEEEEECCeE--EEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHHH----cCCCEEEEEECCCC
Confidence            3444556655  555999999888666677788999999999988754333322 2223323    46799999999998


Q ss_pred             CCcCCCCHHHHHHHHHHcCC----cEEEeCCCCC
Q psy11289        100 DHQRQVSSMDAQNVARQLRI----PYIECSAKVR  129 (159)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~----~~~~~sa~~~  129 (159)
                      .+..  ......++.+.++.    ..+++|+..+
T Consensus       140 ~~~~--~~~~~~~i~~~l~~~~~~~~ipisa~~~  171 (693)
T PRK00007        140 TGAD--FYRVVEQIKDRLGANPVPIQLPIGAEDD  171 (693)
T ss_pred             CCCC--HHHHHHHHHHHhCCCeeeEEecCccCCc
Confidence            7533  12233344444443    2456666655

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.40  E-value=2.4e-06  Score=54.32  Aligned_cols=97  Identities=20%  Similarity=0.148  Sum_probs=69.3

Q ss_pred             EeCCCccc----chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH
Q psy11289         35 LDTAGQEE----FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA  110 (159)
Q Consensus        35 ~D~~g~~~----~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  110 (159)
                      +||||.--    +.+.......++|.+++|-.+++++|.-.     +.+..   .-..|+|-|++|.|+++...  .+..
T Consensus        42 IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~-----p~f~~---~~~k~vIgvVTK~DLaed~d--I~~~  111 (148)
T COG4917          42 IDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFP-----PGFLD---IGVKKVIGVVTKADLAEDAD--ISLV  111 (148)
T ss_pred             cCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCC-----ccccc---ccccceEEEEecccccchHh--HHHH
Confidence            79998632    22223344678999999999999866322     11222   13567999999999986333  4555


Q ss_pred             HHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHH
Q psy11289        111 QNVARQLRI-PYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus       111 ~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      +.+..+.|. ++|++|+.++.|++++++.+..
T Consensus       112 ~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917         112 KRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             HHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            677777785 4999999999999999988764

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.37  E-value=4.9e-06  Score=63.35  Aligned_cols=97  Identities=16%  Similarity=0.226  Sum_probs=67.3

Q ss_pred             EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         20 TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        20 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +..+..+-..+.++|-||||+++|..-.-..+.-+|.+++|.|+...-.-+.     .++.+.+...++|++-..||.|.
T Consensus        71 sSVMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT-----~KLfeVcrlR~iPI~TFiNKlDR  145 (528)
T COG4108          71 SSVMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQT-----LKLFEVCRLRDIPIFTFINKLDR  145 (528)
T ss_pred             eeEEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHH-----HHHHHHHhhcCCceEEEeecccc
Confidence            4555566666778889999999997655555677899999999976422221     23345555588999999999997


Q ss_pred             CCcCCCCHHHHHHHHHHcCCcEEE
Q psy11289        100 DHQRQVSSMDAQNVARQLRIPYIE  123 (159)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~~~~~~  123 (159)
                      ....+  .+...+..+.+++.+++
T Consensus       146 ~~rdP--~ELLdEiE~~L~i~~~P  167 (528)
T COG4108         146 EGRDP--LELLDEIEEELGIQCAP  167 (528)
T ss_pred             ccCCh--HHHHHHHHHHhCcceec
Confidence            54333  45566677777755443

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.37  E-value=2e-06  Score=63.05  Aligned_cols=110  Identities=20%  Similarity=0.281  Sum_probs=74.4

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh----hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC-
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR----NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV-  105 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~-  105 (159)
                      ++.|.|.||++-....+-+-..=.|+.++|..++.+    ++-+++.-     ++..  .-..+|++-||.|+...+.. 
T Consensus        87 ~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~A-----leIi--gik~iiIvQNKIDlV~~E~Al  159 (415)
T COG5257          87 RVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMA-----LEII--GIKNIIIVQNKIDLVSRERAL  159 (415)
T ss_pred             EEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHH-----Hhhh--ccceEEEEecccceecHHHHH
Confidence            577899999986433222222335999999999874    45555432     1222  22468999999999653322 


Q ss_pred             -CHHHHHHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 -SSMDAQNVARQ---LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 -~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                       +.+++++|.+-   -+.|++++||..+.||+.+++.+.+.+-...
T Consensus       160 E~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~  205 (415)
T COG5257         160 ENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPE  205 (415)
T ss_pred             HHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCc
Confidence             23445555542   2578999999999999999999998876443

>PRK09602 translation-associated GTPase; Reviewed

Probab=98.36  E-value=2e-05  Score=60.44  Aligned_cols=52  Identities=21%  Similarity=0.286  Sum_probs=35.1

Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH-HHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ-AFHELVRI  142 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~-~~~~l~~~  142 (159)
                      .+|+++|+||.|.....    +....+.+..+..++.+||+.+.++.+ +.+.+++.
T Consensus       217 ~KPvI~VlNK~D~~~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~  269 (396)
T PRK09602        217 SKPMVIAANKADLPPAE----ENIERLKEEKYYIVVPTSAEAELALRRAAKAGLIDY  269 (396)
T ss_pred             CCCEEEEEEchhcccch----HHHHHHHhcCCCcEEEEcchhhhhHHHHHHHhHHhh
Confidence            48999999999965321    112222222245699999999999998 55555554

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.36  E-value=1.2e-05  Score=66.20  Aligned_cols=71  Identities=21%  Similarity=0.280  Sum_probs=51.9

Q ss_pred             ECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         25 IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        25 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .++..+.+.|.||||+.+|.......++.+|++++|+|+...-......-| ....+    .+.|.|+++||+|..
T Consensus        82 ~~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~-~~~~~----~~~~~iv~iNK~D~~  152 (731)
T PRK07560         82 YEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVL-RQALR----ERVKPVLFINKVDRL  152 (731)
T ss_pred             ecCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHH-HHHHH----cCCCeEEEEECchhh
Confidence            355567788899999999988888888999999999999875333222222 22222    346789999999975

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.32  E-value=3.1e-06  Score=59.28  Aligned_cols=56  Identities=23%  Similarity=0.132  Sum_probs=41.7

Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..|.++++||.|+.+......+...+..++.+  .+++++||++|.|++++++++.+.
T Consensus       148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       148 KEADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hhCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999986533322334444444443  789999999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.30  E-value=1.9e-05  Score=60.12  Aligned_cols=106  Identities=18%  Similarity=0.218  Sum_probs=74.8

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      .+.|.|+||++++-+..-.-+...|.+++|++.++   +.+.+++.     ++...  .-...++|.+|+|..++..+ .
T Consensus        51 ~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~-----iLdll--gi~~giivltk~D~~d~~r~-e  122 (447)
T COG3276          51 VMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLL-----ILDLL--GIKNGIIVLTKADRVDEARI-E  122 (447)
T ss_pred             ceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHH-----HHHhc--CCCceEEEEeccccccHHHH-H
Confidence            56779999999886655555668899999999965   45555542     23332  22356999999998764432 2


Q ss_pred             HHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        108 MDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       108 ~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +...+....+   ..+++.+|+.+|+||+++-+.+.....
T Consensus       123 ~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         123 QKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             HHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhhh
Confidence            2333333333   356899999999999999999999874

>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=98.29  E-value=9.3e-07  Score=63.19  Aligned_cols=109  Identities=16%  Similarity=0.127  Sum_probs=56.9

Q ss_pred             EEEEeCCCcccchHHHHHHh--------hcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         32 LDILDTAGQEEFSAMREQYM--------RSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~--------~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..++|||||.++-..+....        ...-+++++.|...   +..|-...  +..+..... .+.|.|.|.||+|+.
T Consensus        93 y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~--L~s~s~~~~-~~lP~vnvlsK~Dl~  169 (238)
T PF03029_consen   93 YLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSL--LLSLSIMLR-LELPHVNVLSKIDLL  169 (238)
T ss_dssp             EEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHH--HHHHHHHHH-HTSEEEEEE--GGGS
T ss_pred             EEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHH--HHHHHHHhh-CCCCEEEeeeccCcc
Confidence            45699999987655444443        45678899999864   44443332  222111111 468999999999996


Q ss_pred             CcC------------CC-------CHHHHHHHHHHc---C-C-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        101 HQR------------QV-------SSMDAQNVARQL---R-I-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       101 ~~~------------~~-------~~~~~~~~~~~~---~-~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ...            ..       .......+++-.   + . .++.+|+.++.|+.+++..+-+++
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            521            00       000111222222   3 3 699999999999999998887654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.26  E-value=2.5e-05  Score=58.44  Aligned_cols=104  Identities=20%  Similarity=0.225  Sum_probs=66.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.|.||+|...-...   ....+|.++++.+....+.+..+.   ..+.+      ..-++|+||+|+...... ...
T Consensus       149 ~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E------~aDIiVVNKaDl~~~~~a-~~~  215 (332)
T PRK09435        149 YDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIK---KGIME------LADLIVINKADGDNKTAA-RRA  215 (332)
T ss_pred             CCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHH---hhhhh------hhheEEeehhcccchhHH-HHH
Confidence            44566999998743322   466799999997655555554432   21222      234899999998653321 111


Q ss_pred             HHHHHHHc----------CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        110 AQNVARQL----------RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       110 ~~~~~~~~----------~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..++...+          ..+++.+||+++.|++++++.+.+.+...
T Consensus       216 ~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l  262 (332)
T PRK09435        216 AAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAAL  262 (332)
T ss_pred             HHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            12222222          24799999999999999999999876533

>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=98.23  E-value=3e-05  Score=49.03  Aligned_cols=79  Identities=18%  Similarity=0.235  Sum_probs=50.4

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchH---------HHHHHhhcCCEEEEEEECCChh--hHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA---------MREQYMRSGEGFLLVFSVTDRN--SFEEIYKFH   76 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~---------~~~~~~~~~~~ii~v~d~~~~~--s~~~~~~~~   76 (159)
                      ....++++.......+..++..+.  ++||||...-..         .....+..+|++++|+|.+++.  +...+.   
T Consensus        27 ~~~~~~~T~~~~~~~~~~~~~~~~--~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vv~~~~~~~~~~~~~~---  101 (116)
T PF01926_consen   27 VSNIPGTTRDPVYGQFEYNNKKFI--LVDTPGINDGESQDNDGKEIRKFLEQISKSDLIIYVVDASNPITEDDKNIL---  101 (116)
T ss_dssp             ESSSTTSSSSEEEEEEEETTEEEE--EEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEEEEEETTSHSHHHHHHHH---
T ss_pred             ccccccceeeeeeeeeeeceeeEE--EEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHH---
Confidence            344556666554556677888875  599999743211         1222247899999999988842  233332   


Q ss_pred             HHHHhhcCCCCCcEEEEEeC
Q psy11289         77 RQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK   96 (159)
                      ..+    . .+.|+++|.||
T Consensus       102 ~~l----~-~~~~~i~v~NK  116 (116)
T PF01926_consen  102 REL----K-NKKPIILVLNK  116 (116)
T ss_dssp             HHH----H-TTSEEEEEEES
T ss_pred             HHH----h-cCCCEEEEEcC
Confidence            333    1 56799999998

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 ....

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.22  E-value=1e-05  Score=59.20  Aligned_cols=92  Identities=14%  Similarity=0.131  Sum_probs=65.9

Q ss_pred             HHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEe
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC  124 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (159)
                      +.+.-+.+.|-+++++++.+|+ +...+.+++-....    .++..++|.||+|+.+......++.......+|++++.+
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~----~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~  147 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA----GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFV  147 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH----cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEe
Confidence            3334455678888888888875 45555555433322    577788889999998655443344556677789999999


Q ss_pred             CCCCCCCHHHHHHHHHH
Q psy11289        125 SAKVRINVDQAFHELVR  141 (159)
Q Consensus       125 sa~~~~~i~~~~~~l~~  141 (159)
                      |++++.++.++.+.+..
T Consensus       148 s~~~~~~~~~l~~~l~~  164 (301)
T COG1162         148 SAKNGDGLEELAELLAG  164 (301)
T ss_pred             cCcCcccHHHHHHHhcC
Confidence            99999999998887754

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.17  E-value=9.6e-06  Score=60.01  Aligned_cols=103  Identities=17%  Similarity=0.207  Sum_probs=63.5

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.|.||+|.-...   ......+|.++++-..   ++-+++......+      .++|.++++||+|+..........
T Consensus       127 ~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~---~~~~el~~~~~~l------~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       127 YDVIIVETVGVGQSE---VDIANMADTFVVVTIP---GTGDDLQGIKAGL------MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCEEEEeCCCCchhh---hHHHHhhceEEEEecC---CccHHHHHHHHHH------hhhccEEEEEcccccchhHHHHHH
Confidence            456679999865322   2345677888888543   3344444333333      356789999999986533211000


Q ss_pred             H------HHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        110 A------QNVARQ---LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       110 ~------~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .      ..+...   +..+++.+||+++.|++++++++.+...
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            0      111111   1245999999999999999999998744

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.

>KOG0461|consensus

Probab=98.12  E-value=3.1e-05  Score=57.62  Aligned_cols=123  Identities=15%  Similarity=0.124  Sum_probs=74.6

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC-CcCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD-HQRQ  104 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~-~~~~  104 (159)
                      .+++..+.+.|+||+...-...-.-..=.|..++|.|+.....-+.+..++  +.+.   .....++|.||.|.. +...
T Consensus        66 q~e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLi--ig~~---~c~klvvvinkid~lpE~qr  140 (522)
T KOG0461|consen   66 QGEQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLI--IGEL---LCKKLVVVINKIDVLPENQR  140 (522)
T ss_pred             ccccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhh--hhhh---hccceEEEEeccccccchhh
Confidence            567778888999999653222222233458889999997654333333221  2221   233567778888864 3222


Q ss_pred             CC--HHHHHHHHHHc------C-CcEEEeCCCCC----CCHHHHHHHHHHHHHhccccCCCC
Q psy11289        105 VS--SMDAQNVARQL------R-IPYIECSAKVR----INVDQAFHELVRIVLLHTKQCKNS  153 (159)
Q Consensus       105 ~~--~~~~~~~~~~~------~-~~~~~~sa~~~----~~i~~~~~~l~~~~~~~~~~~~~~  153 (159)
                      .+  .+..+..++.+      | .|++++||..|    .++.++.+.+-+++.+.+.+.+.+
T Consensus       141 ~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~Rd~~gp  202 (522)
T KOG0461|consen  141 ASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKRDEEGP  202 (522)
T ss_pred             hhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCcCCCCC
Confidence            22  12223333333      2 78999999999    788888888888887766544433

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.12  E-value=0.00031  Score=48.69  Aligned_cols=129  Identities=12%  Similarity=0.093  Sum_probs=73.5

Q ss_pred             cceEEEEEEECCeeEEEEEEeCCCcccch----H----HHH---HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289         16 EDSYTKQCVIDDIPARLDILDTAGQEEFS----A----MRE---QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~----~~~---~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      .........++|..+  .++||||.....    .    +..   ....++|++|+|.++.+. +-.+ ...++.+.+..+
T Consensus        37 ~~~~~~~~~~~~~~i--~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~illVi~~~~~-t~~d-~~~l~~l~~~fg  112 (196)
T cd01852          37 KTCQKESAVWDGRRV--NVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHAFLLVVPLGRF-TEEE-EQAVETLQELFG  112 (196)
T ss_pred             cccceeeEEECCeEE--EEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEEEEEEEECCCc-CHHH-HHHHHHHHHHhC
Confidence            333344455677765  459999975431    1    111   113578999999999872 2211 122333333322


Q ss_pred             C-CCCcEEEEEeCCCCCCcCCCC------HHHHHHHHHHcCCcEEEeC-----CCCCCCHHHHHHHHHHHHHhccc
Q psy11289         85 R-DEFPMLMVGNKADLDHQRQVS------SMDAQNVARQLRIPYIECS-----AKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        85 ~-~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~s-----a~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      . .-.+++++.|+.|......+.      ....+.+.+..+-.++..+     +..+.++.++++.+-+.+.+..+
T Consensus       113 ~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~~~  188 (196)
T cd01852         113 EKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNKAKGEEQEQQVKELLAKVESMVKENGG  188 (196)
T ss_pred             hHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCCCCcchhHHHHHHHHHHHHHHHHhcCC
Confidence            1 124788999999865433211      1233444455555555554     45677899999999888876443

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).

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.11  E-value=8.7e-06  Score=67.94  Aligned_cols=68  Identities=21%  Similarity=0.261  Sum_probs=52.0

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+++++.||||+.+|.......++.+|++|+|+|+.+.-......- +..+..    .++|+++++||+|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~-~~~~~~----~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETV-LRQALG----ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHH-HHHHHH----CCCCEEEEEECCccc
Confidence            35677889999999998877888899999999999987644333222 233322    578999999999975

>PTZ00416 elongation factor 2; Provisional

Probab=98.09  E-value=1.4e-05  Score=66.68  Aligned_cols=67  Identities=22%  Similarity=0.370  Sum_probs=51.0

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ...+.|.||||+.+|.......++.+|++|+|+|+.+.-..... ..+..+..    .++|++++.||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~----~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQ----ERIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHH----cCCCEEEEEEChhhh
Confidence            56678899999999987778888999999999999875333322 22333333    467999999999985

>KOG0458|consensus

Probab=98.07  E-value=2.6e-05  Score=61.18  Aligned_cols=112  Identities=15%  Similarity=0.149  Sum_probs=70.2

Q ss_pred             EEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hHHHH--HHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         22 QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SFEEI--YKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        22 ~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~~~~--~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      ...++-....+.|.|.||+..|.+..-.-...||+.++|.|++-.+   .|+.-  .+-...+.+..+  -..++|+.||
T Consensus       247 ~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg--i~qlivaiNK  324 (603)
T KOG0458|consen  247 TTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG--ISQLIVAINK  324 (603)
T ss_pred             eEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC--cceEEEEeec
Confidence            3344455555677999999888776666667899999999997632   23311  122334444432  2468889999


Q ss_pred             CCCCCcCCCCHHHHH----HHH-HHcC-----CcEEEeCCCCCCCHHHH
Q psy11289         97 ADLDHQRQVSSMDAQ----NVA-RQLR-----IPYIECSAKVRINVDQA  135 (159)
Q Consensus        97 ~D~~~~~~~~~~~~~----~~~-~~~~-----~~~~~~sa~~~~~i~~~  135 (159)
                      +|+.+=.+-..+++.    .|. +..|     +.|++||+++|.|+...
T Consensus       325 mD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  325 MDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            998531111123332    233 3334     56999999999987654

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.02  E-value=8.8e-05  Score=60.49  Aligned_cols=68  Identities=22%  Similarity=0.298  Sum_probs=53.5

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      .++++|+||||+-+|......-++-+|++++|+|+...-..+.-.-| .+..+    .++|.+++.||+|...
T Consensus        75 ~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~-rqa~~----~~vp~i~fiNKmDR~~  142 (697)
T COG0480          75 DYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVW-RQADK----YGVPRILFVNKMDRLG  142 (697)
T ss_pred             ceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHH-HHHhh----cCCCeEEEEECccccc
Confidence            56778899999999999999999999999999999875444333333 23323    5789999999999753

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.02  E-value=0.00013  Score=52.73  Aligned_cols=115  Identities=18%  Similarity=0.248  Sum_probs=75.2

Q ss_pred             EECCeeEEEEEEeCCCccc-------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         24 VIDDIPARLDILDTAGQEE-------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +++++.  +.|||+||.+.       |+.....++...|.++++.++.|+.=--+ .+++..+....  .+.++++++|.
T Consensus        83 ~~~~~~--l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l~~~~draL~~d-~~f~~dVi~~~--~~~~~i~~VtQ  157 (296)
T COG3596          83 SYDGEN--LVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTD-EDFLRDVIILG--LDKRVLFVVTQ  157 (296)
T ss_pred             hccccc--eEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEeccCCCccccCC-HHHHHHHHHhc--cCceeEEEEeh
Confidence            445655  45599999865       55566777889999999999988642211 13344444443  34799999999


Q ss_pred             CCCCCc--------CCCCHHHHHHHHHH----c------CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         97 ADLDHQ--------RQVSSMDAQNVARQ----L------RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        97 ~D~~~~--------~~~~~~~~~~~~~~----~------~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +|...+        ...+. ..+++.++    .      --|++.+|.+.+.|++.+...++..+-
T Consensus       158 ~D~a~p~~~W~~~~~~p~~-a~~qfi~~k~~~~~~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp  222 (296)
T COG3596         158 ADRAEPGREWDSAGHQPSP-AIKQFIEEKAEALGRLFQEVKPVVAVSGRLPWGLKELVRALITALP  222 (296)
T ss_pred             hhhhccccccccccCCCCH-HHHHHHHHHHHHHHHHHhhcCCeEEeccccCccHHHHHHHHHHhCc
Confidence            997543        11222 22222211    1      135788888999999999999988764

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.01  E-value=7.8e-05  Score=54.38  Aligned_cols=110  Identities=17%  Similarity=0.251  Sum_probs=69.2

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDH  101 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~  101 (159)
                      .++.+-.  .|+||+.+|-+..-.-...+|+.|+|++++|   |.+-+++.     +.+.   -++| ++++.||+|+.+
T Consensus        73 ~~rhyah--VDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHiL-----larq---vGvp~ivvflnK~Dmvd  142 (394)
T COG0050          73 ANRHYAH--VDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHIL-----LARQ---VGVPYIVVFLNKVDMVD  142 (394)
T ss_pred             CCceEEe--ccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhhh-----hhhh---cCCcEEEEEEecccccC
Confidence            4455444  9999999986644444556799999999998   45555542     1111   3565 556789999976


Q ss_pred             cCCC---CHHHHHHHHHHcCC-----cEEEeCCCCC-C-------CHHHHHHHHHHHHHh
Q psy11289        102 QRQV---SSMDAQNVARQLRI-----PYIECSAKVR-I-------NVDQAFHELVRIVLL  145 (159)
Q Consensus       102 ~~~~---~~~~~~~~~~~~~~-----~~~~~sa~~~-~-------~i~~~~~~l~~~~~~  145 (159)
                      ..++   -+.+.+++..++++     |++.-||+.. .       .|.++++.+-+.+..
T Consensus       143 d~ellelVemEvreLLs~y~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~  202 (394)
T COG0050         143 DEELLELVEMEVRELLSEYGFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPT  202 (394)
T ss_pred             cHHHHHHHHHHHHHHHHHcCCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCC
Confidence            4332   24566788888874     5777777632 1       245555555544433

>KOG3905|consensus

Probab=97.99  E-value=0.00031  Score=52.01  Aligned_cols=118  Identities=14%  Similarity=0.148  Sum_probs=80.3

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhc----CCEEEEEEECCCh-hhHHHHHHHHHHHHh---------------------
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRS----GEGFLLVFSVTDR-NSFEEIYKFHRQILR---------------------   81 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~----~~~ii~v~d~~~~-~s~~~~~~~~~~i~~---------------------   81 (159)
                      ...++.+|=..|.-.+..+....+..    -..+|++.|+++| ..++.+++|..-+.+                     
T Consensus        98 d~tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k  177 (473)
T KOG3905|consen   98 DLTRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEK  177 (473)
T ss_pred             hhhhcceEEecCchhhhhHHhhcccccCccceEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHH
Confidence            34556668888876555444333221    2578899999999 456667777543333                     


Q ss_pred             ----hc-----------------------------------CCCCCcEEEEEeCCCC----CCcCCCC-------HHHHH
Q psy11289         82 ----VK-----------------------------------DRDEFPMLMVGNKADL----DHQRQVS-------SMDAQ  111 (159)
Q Consensus        82 ----~~-----------------------------------~~~~~p~ivv~nK~D~----~~~~~~~-------~~~~~  111 (159)
                          +.                                   ..-++|++||++|+|.    ..+....       ....+
T Consensus       178 ~wQeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lR  257 (473)
T KOG3905|consen  178 DWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLR  257 (473)
T ss_pred             HHHHhcCccccCCCCcccccccccCccccccccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHH
Confidence                11                                   0124899999999997    2222211       12347


Q ss_pred             HHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        112 NVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       112 ~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .||..+|...+.+|++...|++-+...|...++.
T Consensus       258 kFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  258 KFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYG  291 (473)
T ss_pred             HHHHHcCceeEEeecccccchHHHHHHHHHHhcC
Confidence            7899999999999999999999999999887653

>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=97.97  E-value=4.2e-05  Score=41.93  Aligned_cols=45  Identities=22%  Similarity=0.380  Sum_probs=30.3

Q ss_pred             hcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         52 RSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        52 ~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      .=+++++|++|++..  -+.++...+++.+....  .++|+++|.||+|
T Consensus        12 hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F--~~~P~i~V~nK~D   58 (58)
T PF06858_consen   12 HLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF--PNKPVIVVLNKID   58 (58)
T ss_dssp             GT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT--TTS-EEEEE--TT
T ss_pred             hhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc--CCCCEEEEEeccC
Confidence            346899999999875  45666667788887765  5789999999998

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.95  E-value=0.00039  Score=54.43  Aligned_cols=139  Identities=15%  Similarity=0.170  Sum_probs=89.5

Q ss_pred             ccccccccceEEE-EEEEC--CeeEEEEEEeCCCcccchHHHHHHhh----cCCEEEEEEECCChhhH-HHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTK-QCVID--DIPARLDILDTAGQEEFSAMREQYMR----SGEGFLLVFSVTDRNSF-EEIYKFHRQIL   80 (159)
Q Consensus         9 ~~~~pt~~~~~~~-~~~~~--~~~~~~~l~D~~g~~~~~~~~~~~~~----~~~~ii~v~d~~~~~s~-~~~~~~~~~i~   80 (159)
                      +++.++.|-.|.. .+.-+  +...++.+|-.+|...+..+..-.+.    .--.+++|.|++.|..+ +.+.+|+.-+.
T Consensus        49 e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl~  128 (472)
T PF05783_consen   49 EDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVLR  128 (472)
T ss_pred             CCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecCCChHHHHHHHHHHHHHHH
Confidence            3456777755532 23222  24567888999887666665544332    22688999999998653 34445533222


Q ss_pred             h-------------------------hcC------------------------------------CCCCcEEEEEeCCCC
Q psy11289         81 R-------------------------VKD------------------------------------RDEFPMLMVGNKADL   99 (159)
Q Consensus        81 ~-------------------------~~~------------------------------------~~~~p~ivv~nK~D~   99 (159)
                      +                         +.+                                    ..++|++||++|+|.
T Consensus       129 ~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl~~g~l~~nlGipi~VV~tksD~  208 (472)
T PF05783_consen  129 EHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPLGEGVLTENLGIPIVVVCTKSDK  208 (472)
T ss_pred             HHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccccccCCCCCcccccccCcceEEEEecccH
Confidence            2                         100                                    013799999999996


Q ss_pred             CC----cCCCC-------HHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        100 DH----QRQVS-------SMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       100 ~~----~~~~~-------~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..    +....       .+..+.+|-.+|..++.+|++...+++-++..|...+....
T Consensus       209 ~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~~  267 (472)
T PF05783_consen  209 IETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGFP  267 (472)
T ss_pred             HHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccCC
Confidence            31    11111       12356788899999999999999999999999888776443

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 [].

>KOG0085|consensus

Probab=97.94  E-value=1.6e-05  Score=56.06  Aligned_cols=142  Identities=16%  Similarity=0.172  Sum_probs=96.7

Q ss_pred             cccccccccccceEEEEEEE--------CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC----------hh
Q psy11289          6 YFVTDYDPTIEDSYTKQCVI--------DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD----------RN   67 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~--------~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~----------~~   67 (159)
                      .-.+.|.||..+.....+..        +-.++.+.+.|++|+..-+..|-.+++++..++|++.++.          +.
T Consensus       167 ia~~~ylPTqQDvLRvRvPTTGi~eypfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnEN  246 (359)
T KOG0085|consen  167 IATPGYLPTQQDVLRVRVPTTGIIEYPFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNEN  246 (359)
T ss_pred             hcCcccCcchhhhheeecCcccceecCcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchh
Confidence            33567778776554333222        2245567789999998888899999999988888766543          34


Q ss_pred             hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC----------------CCCHHHHHHHHHHc----C------CcE
Q psy11289         68 SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR----------------QVSSMDAQNVARQL----R------IPY  121 (159)
Q Consensus        68 s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~~~----~------~~~  121 (159)
                      ..++-..++..|..+..-.+.++|+..||.|+.+++                .-+.+.+++|..+.    +      +--
T Consensus       247 RMeESkALFrTIi~yPWF~nssVIlFLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~S  326 (359)
T KOG0085|consen  247 RMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYS  326 (359)
T ss_pred             hHHHHHHHHHHHhccccccCCceEEEechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeee
Confidence            455556677777787777789999999999985421                11122333443221    1      224


Q ss_pred             EEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        122 IECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       122 ~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +.++|.+..||.-+|..+-..+++..
T Consensus       327 HfTcATDT~NIRfVFaaVkDtiLq~~  352 (359)
T KOG0085|consen  327 HFTCATDTENIRFVFAAVKDTILQLN  352 (359)
T ss_pred             eeeecccchhHHHHHHHHHHHHHHhh
Confidence            67899999999999998887777654

>KOG0468|consensus

Probab=97.93  E-value=2.3e-05  Score=62.64  Aligned_cols=69  Identities=25%  Similarity=0.431  Sum_probs=55.1

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +++...+++.||||+-.|......-++-+|++++++|+.+.-.++. .+.++...    ..+.|+++|.||.|.
T Consensus       193 ~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlnt-Er~ikhai----q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  193 KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNT-ERIIKHAI----QNRLPIVVVINKVDR  261 (971)
T ss_pred             cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeH-HHHHHHHH----hccCcEEEEEehhHH
Confidence            5778889999999999998888888899999999999988766643 22232222    257899999999996

>cd01882 BMS1 Bms1

Probab=97.86  E-value=0.00016  Score=51.38  Aligned_cols=93  Identities=16%  Similarity=0.159  Sum_probs=53.4

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCcCC-CC-
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQRQ-VS-  106 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~~~-~~-  106 (159)
                      .++.+.||||..  ..+ -...+.+|++++++|++........ ..+..+..    .+.|. ++|.||.|+.+... .. 
T Consensus        83 ~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~~~~~~~-~i~~~l~~----~g~p~vi~VvnK~D~~~~~~~~~~  154 (225)
T cd01882          83 RRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFGFEMETF-EFLNILQV----HGFPRVMGVLTHLDLFKKNKTLRK  154 (225)
T ss_pred             ceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcCCCHHHH-HHHHHHHH----cCCCeEEEEEeccccCCcHHHHHH
Confidence            345679999864  222 2346889999999999865433221 22222222    34675 45999999863221 10 


Q ss_pred             -HHHHHH-HHHH--cCCcEEEeCCCCCC
Q psy11289        107 -SMDAQN-VARQ--LRIPYIECSAKVRI  130 (159)
Q Consensus       107 -~~~~~~-~~~~--~~~~~~~~sa~~~~  130 (159)
                       ..+.+. +..+  .+.+++.+||++..
T Consensus       155 ~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         155 TKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             HHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence             111111 2222  13679999999874

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.

>KOG3886|consensus

Probab=97.85  E-value=5.1e-05  Score=53.47  Aligned_cols=108  Identities=20%  Similarity=0.290  Sum_probs=63.2

Q ss_pred             EEEEEEeCCCcccchH-----HHHHHhhcCCEEEEEEECCChhhHHHHHHH---HHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEEFSA-----MREQYMRSGEGFLLVFSVTDRNSFEEIYKF---HRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-----~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~---~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      ..+.+||++|++.+-.     .....+++.++++++||++..+-..++..+   ++.+.+.  .+..-+....+|+|+..
T Consensus        53 l~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~--SP~AkiF~l~hKmDLv~  130 (295)
T KOG3886|consen   53 LVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN--SPEAKIFCLLHKMDLVQ  130 (295)
T ss_pred             heeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc--CCcceEEEEEeechhcc
Confidence            4578899999985421     234557899999999999887554444332   2333333  25667888899999854


Q ss_pred             cC--CCCHHHHHH----HHHHcCCcEEEeCCCCCCCHHHHHHHHH
Q psy11289        102 QR--QVSSMDAQN----VARQLRIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       102 ~~--~~~~~~~~~----~~~~~~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      ..  ....+...+    +....++.++++|--+ ..+..++..+.
T Consensus       131 ~d~r~~if~~r~~~l~~~s~~~~~~~f~TsiwD-etl~KAWS~iv  174 (295)
T KOG3886|consen  131 EDARELIFQRRKEDLRRLSRPLECKCFPTSIWD-ETLYKAWSSIV  174 (295)
T ss_pred             cchHHHHHHHHHHHHHHhcccccccccccchhh-HHHHHHHHHHH
Confidence            32  222222222    2223345677777654 23333333333

>PTZ00258 GTP-binding protein; Provisional

Probab=97.81  E-value=0.0005  Score=52.57  Aligned_cols=44  Identities=20%  Similarity=0.183  Sum_probs=28.7

Q ss_pred             CCCcEEEEEeCC--CCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCC
Q psy11289         86 DEFPMLMVGNKA--DLDHQRQVSSMDAQNVARQL-RIPYIECSAKVR  129 (159)
Q Consensus        86 ~~~p~ivv~nK~--D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~  129 (159)
                      ..+|+++|+|+.  |+.....-..+....++... +.+++.+||+-.
T Consensus       219 t~KP~iyv~N~~E~D~~~~~~~~~~~l~~~~~~~~~~~~v~~sa~~E  265 (390)
T PTZ00258        219 TAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGEKGGGPIIPYSAEFE  265 (390)
T ss_pred             hcCCEEEEEECchhhhcccchHHHHHHHHHHHhcCCCeEEEeeHHHH
Confidence            358999999999  75221111234555666666 478999998643

>KOG1532|consensus

Probab=97.80  E-value=0.00029  Score=51.06  Aligned_cols=114  Identities=18%  Similarity=0.218  Sum_probs=63.8

Q ss_pred             EEEEEEeCCCccc-c-----hHHHHHHhh--cCCEEEEEEECC---ChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         30 ARLDILDTAGQEE-F-----SAMREQYMR--SGEGFLLVFSVT---DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        30 ~~~~l~D~~g~~~-~-----~~~~~~~~~--~~~~ii~v~d~~---~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      +...+.|||||.. |     .+.....+.  ...++++++|..   +|.+|-.-.-+--.|+.   ....|.|++.||+|
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSily---ktklp~ivvfNK~D  192 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILY---KTKLPFIVVFNKTD  192 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHH---hccCCeEEEEeccc
Confidence            4456699999843 2     222222222  345666666653   34444332211112222   25689999999999


Q ss_pred             CCCcCC----CC----HHHHHH-----------------HHHH-cCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         99 LDHQRQ----VS----SMDAQN-----------------VARQ-LRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        99 ~~~~~~----~~----~~~~~~-----------------~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +.+..-    .+    .+++.+                 +-.- .++..+.|||.+|.|.++.|..+-..+.+.
T Consensus       193 v~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy  266 (366)
T KOG1532|consen  193 VSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEY  266 (366)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHH
Confidence            865310    00    011111                 0000 146789999999999999999887665443

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.74  E-value=0.00068  Score=51.32  Aligned_cols=104  Identities=20%  Similarity=0.183  Sum_probs=64.2

Q ss_pred             EEEEeCCCcccchH--HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--H
Q psy11289         32 LDILDTAGQEEFSA--MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--S  107 (159)
Q Consensus        32 ~~l~D~~g~~~~~~--~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~  107 (159)
                      +.|.|+.|+++|-.  +.-.+-+..|-.++++.+++.-+--  .+-...+.-.   ...|++++.+|+|+..+..+.  .
T Consensus       203 VsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~--tkEHLgi~~a---~~lPviVvvTK~D~~~ddr~~~v~  277 (527)
T COG5258         203 VSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKM--TKEHLGIALA---MELPVIVVVTKIDMVPDDRFQGVV  277 (527)
T ss_pred             EEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchh--hhHhhhhhhh---hcCCEEEEEEecccCcHHHHHHHH
Confidence            56799999999843  3333446889999999998854321  1111122222   467999999999996432211  1


Q ss_pred             HHHHH----------------------HHHHcC---CcEEEeCCCCCCCHHHHHHHHH
Q psy11289        108 MDAQN----------------------VARQLR---IPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus       108 ~~~~~----------------------~~~~~~---~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      ++...                      .+-+.+   +|++.+|+.+|.|++-+.+-+.
T Consensus       278 ~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~  335 (527)
T COG5258         278 EEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFL  335 (527)
T ss_pred             HHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHH
Confidence            11111                      111122   5799999999999975544433

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.69  E-value=0.0011  Score=50.99  Aligned_cols=84  Identities=13%  Similarity=0.178  Sum_probs=56.4

Q ss_pred             cCCEEEEEE-ECC--C--hhhHHHH-HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCC
Q psy11289         53 SGEGFLLVF-SVT--D--RNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus        53 ~~~~ii~v~-d~~--~--~~s~~~~-~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                      .++..|+|. |.+  +  ++.+..+ .+|+..+.+    .++|++++.|+.|-....  +.+....+..+++++++.+|+
T Consensus       144 hstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~----~~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c  217 (492)
T TIGR02836       144 HSTIGVVVTTDGTITDIPREDYVEAEERVIEELKE----LNKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDV  217 (492)
T ss_pred             cCcEEEEEEcCCCccccccccchHHHHHHHHHHHh----cCCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEH
Confidence            788888888 664  1  2334333 367777665    678999999999932212  344455677788999777777


Q ss_pred             C--CCCCHHHHHHHHHHH
Q psy11289        127 K--VRINVDQAFHELVRI  142 (159)
Q Consensus       127 ~--~~~~i~~~~~~l~~~  142 (159)
                      .  +...|..+++.++..
T Consensus       218 ~~l~~~DI~~il~~vL~E  235 (492)
T TIGR02836       218 ESMRESDILSVLEEVLYE  235 (492)
T ss_pred             HHcCHHHHHHHHHHHHhc
Confidence            5  456777777777643

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.

>smart00053 DYNc Dynamin, GTPase

Probab=97.59  E-value=0.00055  Score=49.06  Aligned_cols=68  Identities=18%  Similarity=0.157  Sum_probs=42.4

Q ss_pred             EEEEEEeCCCcccc-------------hHHHHHHhh-cCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEe
Q psy11289         30 ARLDILDTAGQEEF-------------SAMREQYMR-SGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN   95 (159)
Q Consensus        30 ~~~~l~D~~g~~~~-------------~~~~~~~~~-~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~n   95 (159)
                      ..+.|.|+||..+.             ..+...|++ ..+.+++|.|++..-+-.....+.+.+.    ..+.|+++|+|
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld----~~~~rti~ViT  200 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVD----PQGERTIGVIT  200 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHH----HcCCcEEEEEE
Confidence            45677999998531             234566777 4569999998864221112112222222    25679999999


Q ss_pred             CCCCCC
Q psy11289         96 KADLDH  101 (159)
Q Consensus        96 K~D~~~  101 (159)
                      |.|..+
T Consensus       201 K~D~~~  206 (240)
T smart00053      201 KLDLMD  206 (240)
T ss_pred             CCCCCC
Confidence            999864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=97.58  E-value=0.0028  Score=47.05  Aligned_cols=80  Identities=16%  Similarity=0.133  Sum_probs=44.3

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHH---HHh------hcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcC-CCCCcEE
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMRE---QYM------RSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKD-RDEFPML   91 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~---~~~------~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~-~~~~p~i   91 (159)
                      ..+|.+  +.+|||||.........   ..+      .+.|++|+|..++..  ...+  ...++.+....+ ..-.++|
T Consensus        82 ~~~G~~--l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~D--kqlLk~Iqe~FG~~iw~~~I  157 (313)
T TIGR00991        82 TRAGFT--LNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVLLYVDRLDAYRVDTLD--GQVIRAITDSFGKDIWRKSL  157 (313)
T ss_pred             EECCeE--EEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEEEEEeccCcccCCHHH--HHHHHHHHHHhhhhhhccEE
Confidence            346655  56699999875432211   112      268999999665432  2121  122333333321 1234789


Q ss_pred             EEEeCCCCCCcCCCCH
Q psy11289         92 MVGNKADLDHQRQVSS  107 (159)
Q Consensus        92 vv~nK~D~~~~~~~~~  107 (159)
                      ++.|+.|....+..+.
T Consensus       158 VVfTh~d~~~pd~~~~  173 (313)
T TIGR00991       158 VVLTHAQFSPPDGLEY  173 (313)
T ss_pred             EEEECCccCCCCCCCH
Confidence            9999999765444443

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.57  E-value=0.0002  Score=49.19  Aligned_cols=55  Identities=20%  Similarity=0.118  Sum_probs=45.0

Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVARQL--RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .-++|+||.|+...-..+.+...+-+++.  +.+++++|+++|.|++++++++....
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            45789999999876666666666666665  48899999999999999999987654

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.53  E-value=0.0026  Score=43.32  Aligned_cols=86  Identities=19%  Similarity=0.180  Sum_probs=59.6

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      ..+.+.+.|+|+...  ......+..+|.++++...+ ..+...+.++++.+.+    .+.|+.+|.||.|....   ..
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~----~~~~~~vV~N~~~~~~~---~~  160 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPT-PSGLHDLERAVELVRH----FGIPVGVVINKYDLNDE---IA  160 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHH----cCCCEEEEEeCCCCCcc---hH
Confidence            455677799996643  23345568899999999887 4466667766665544    34578899999996432   24


Q ss_pred             HHHHHHHHHcCCcEEE
Q psy11289        108 MDAQNVARQLRIPYIE  123 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~~  123 (159)
                      ++..++++++|++++.
T Consensus       161 ~~~~~~~~~~~~~vl~  176 (179)
T cd03110         161 EEIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHHcCCCeEE
Confidence            5667788888887653

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>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=97.39  E-value=0.00069  Score=45.46  Aligned_cols=62  Identities=19%  Similarity=0.326  Sum_probs=43.1

Q ss_pred             EEEEeCCCccc----chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         32 LDILDTAGQEE----FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        32 ~~l~D~~g~~~----~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      +.|+|+||...    ...++..++..+|++|+|.++++.-+-.....+.+....    ....+++|.||.
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~----~~~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDP----DKSRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTT----TCSSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcC----CCCeEEEEEcCC
Confidence            55699999843    236788889999999999999986655554444433333    333488888884

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 ....

>KOG0466|consensus

Probab=97.34  E-value=0.00036  Score=51.32  Aligned_cols=107  Identities=19%  Similarity=0.243  Sum_probs=67.7

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC----hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD----RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS  106 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~  106 (159)
                      ++.|.|+||++-.....-.-..-.|+++++...+.    |.+-+++...  ++.     .=+.++++-||.|+..+.+..
T Consensus       126 HVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaav--eiM-----~LkhiiilQNKiDli~e~~A~  198 (466)
T KOG0466|consen  126 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAV--EIM-----KLKHIIILQNKIDLIKESQAL  198 (466)
T ss_pred             EEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHH--HHh-----hhceEEEEechhhhhhHHHHH
Confidence            46789999998643311111222477777776654    4555555321  121     224789999999997644332


Q ss_pred             H--HHHHHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        107 S--MDAQNVARQ---LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       107 ~--~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +  ++...|.+.   .|.|++++||.-+.|++-+.+.+++.+-
T Consensus       199 eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  199 EQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             HHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            1  222333331   2578999999999999999998887764

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.31  E-value=0.00062  Score=49.97  Aligned_cols=56  Identities=27%  Similarity=0.150  Sum_probs=39.9

Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQL--RIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..+-++|.||+|+........+...+..+.+  ..+++++||++|.|++++.+|+..+
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            4567999999998642222233333333333  4789999999999999999999764

>KOG0465|consensus

Probab=97.24  E-value=0.0021  Score=51.26  Aligned_cols=66  Identities=27%  Similarity=0.362  Sum_probs=50.0

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      ...++++||||+..|.-..+.-++--|+++++++....-.-+...-| .++.+    -++|-|...||+|.
T Consensus       103 ~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~-rQ~~r----y~vP~i~FiNKmDR  168 (721)
T KOG0465|consen  103 DYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVW-RQMKR----YNVPRICFINKMDR  168 (721)
T ss_pred             cceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHH-HHHHh----cCCCeEEEEehhhh
Confidence            56788899999999987788888888999999998765333333344 33434    46899999999986

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=97.23  E-value=0.018  Score=43.81  Aligned_cols=41  Identities=20%  Similarity=0.168  Sum_probs=27.8

Q ss_pred             CCcEEEEEeCCCCCC-cCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289         87 EFPMLMVGNKADLDH-QRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      .+|+++++|+.|..- ...-..+...+++...+.+++.+||.
T Consensus       199 ~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~~~~~~~i~~sa~  240 (364)
T PRK09601        199 AKPVLYVANVDEDDLADGNPYVKKVREIAAKEGAEVVVICAK  240 (364)
T ss_pred             cCCeEEEEECCccccccccHHHHHHHHHHHHcCCeEEEEEHH
Confidence            489999999998421 11112345566666778889999984

>KOG3887|consensus

Probab=97.23  E-value=0.0038  Score=44.62  Aligned_cols=118  Identities=17%  Similarity=0.223  Sum_probs=70.4

Q ss_pred             eeEEEEEEeCCCcccc-hH--HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh-cCCCCCcEEEEEeCCCCCCc-
Q psy11289         28 IPARLDILDTAGQEEF-SA--MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV-KDRDEFPMLMVGNKADLDHQ-  102 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~-~~--~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~-~~~~~~p~ivv~nK~D~~~~-  102 (159)
                      .-+.+++||.|||-.+ .+  -.+..++++.++++|.|+-+. -.+.+.++...+.+. .-.+++-+=+...|.|...+ 
T Consensus        73 sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd  151 (347)
T KOG3887|consen   73 SFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDD  151 (347)
T ss_pred             hhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchh
Confidence            3456888999999654 21  246778999999999998553 333344433333221 12356777788999996422 


Q ss_pred             CCCC-HHH-----HHHHHHHcC---C--cEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        103 RQVS-SMD-----AQNVARQLR---I--PYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       103 ~~~~-~~~-----~~~~~~~~~---~--~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      -.+. ...     ...++ ..|   +  .++-+|-.+ ..|.++|..+++.+..+.+
T Consensus       152 ~kietqrdI~qr~~d~l~-d~gle~v~vsf~LTSIyD-HSIfEAFSkvVQkLipqLp  206 (347)
T KOG3887|consen  152 FKIETQRDIHQRTNDELA-DAGLEKVQVSFYLTSIYD-HSIFEAFSKVVQKLIPQLP  206 (347)
T ss_pred             hhhhhHHHHHHHhhHHHH-hhhhccceEEEEEeeecc-hHHHHHHHHHHHHHhhhch
Confidence            1111 111     11222 223   2  355555554 6799999998888776654

>KOG0460|consensus

Probab=97.12  E-value=0.0036  Score=46.81  Aligned_cols=91  Identities=20%  Similarity=0.238  Sum_probs=59.3

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCC-cEEEEEeCCCCCCc
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEF-PMLMVGNKADLDHQ  102 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~-p~ivv~nK~D~~~~  102 (159)
                      .+.+--  .|+||+.+|-+..-.-....|+.|+|+.++|   |++-+++.     +.+.   -++ .+++..||.|+.++
T Consensus       116 ~RhYaH--~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQTrEHlL-----LArQ---VGV~~ivvfiNKvD~V~d  185 (449)
T KOG0460|consen  116 KRHYAH--TDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQTREHLL-----LARQ---VGVKHIVVFINKVDLVDD  185 (449)
T ss_pred             cccccc--CCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcchHHHHH-----HHHH---cCCceEEEEEecccccCC
Confidence            344444  8999999986544444456799999999998   44555431     1221   233 57788999998743


Q ss_pred             CC---CCHHHHHHHHHHcC-----CcEEEeCCC
Q psy11289        103 RQ---VSSMDAQNVARQLR-----IPYIECSAK  127 (159)
Q Consensus       103 ~~---~~~~~~~~~~~~~~-----~~~~~~sa~  127 (159)
                      .+   +-+-+.+++..++|     +|++.-||+
T Consensus       186 ~e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  186 PEMLELVEMEIRELLSEFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCCCCeeecchh
Confidence            22   22456677888876     568876665

>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=97.11  E-value=0.011  Score=41.62  Aligned_cols=129  Identities=15%  Similarity=0.120  Sum_probs=71.2

Q ss_pred             ceEEEEEEECCeeEEEEEEeCCCcccch----HH---HH----HHhhcCCEEEEEEECCChhh-HHHHHHHHHHHHhhcC
Q psy11289         17 DSYTKQCVIDDIPARLDILDTAGQEEFS----AM---RE----QYMRSGEGFLLVFSVTDRNS-FEEIYKFHRQILRVKD   84 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~l~D~~g~~~~~----~~---~~----~~~~~~~~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~   84 (159)
                      ........++|..+.+  +||||.....    ..   ..    ....+.|++|+|+.+..... -..+-.++..+.... 
T Consensus        38 ~~~~~~~~~~g~~v~V--IDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha~llVi~~~r~t~~~~~~l~~l~~~FG~~-  114 (212)
T PF04548_consen   38 ECQKYSGEVDGRQVTV--IDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHAFLLVIPLGRFTEEDREVLELLQEIFGEE-  114 (212)
T ss_dssp             S-EEEEEEETTEEEEE--EE--SSEETTEEHHHHHHHHHHHHHHTTT-ESEEEEEEETTB-SHHHHHHHHHHHHHHCGG-
T ss_pred             ccceeeeeecceEEEE--EeCCCCCCCcccHHHHHHHHHHHHHhccCCCeEEEEEEecCcchHHHHHHHHHHHHHccHH-
Confidence            3334555788988766  9999964321    11   11    12356899999999884321 112223333332211 


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCC-------HHHHHHHHHHcCCcEEEeCCC------CCCCHHHHHHHHHHHHHhcccc
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVS-------SMDAQNVARQLRIPYIECSAK------VRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~~~~~sa~------~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                       --..++||.+..|......+.       ......+.+..+-.++..+..      ....+.++++.+-..+.+....
T Consensus       115 -~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~g~  191 (212)
T PF04548_consen  115 -IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGRYHVFNNKTKDKEKDESQVSELLEKIEEMVQENGGQ  191 (212)
T ss_dssp             -GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTTTT
T ss_pred             -HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCEEEEEeccccchhhhHHHHHHHHHHHHHHHHHcCCC
Confidence             124688888888865544321       112344555566678887777      3356888888887777666543

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 ....

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=97.09  E-value=0.018  Score=41.58  Aligned_cols=89  Identities=16%  Similarity=0.148  Sum_probs=47.9

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccch--H-H-------HHHHhh--cCCEEEEEEECCChh-hHHHHHHHH
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS--A-M-------REQYMR--SGEGFLLVFSVTDRN-SFEEIYKFH   76 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~--~-~-------~~~~~~--~~~~ii~v~d~~~~~-s~~~~~~~~   76 (159)
                      .+.|++..........+|.+  +.+|||||.....  . .       ...++.  ..+++++|..++... +..+ ...+
T Consensus        61 ~~~~~T~~~~~~~~~~~g~~--i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~idvIL~V~rlD~~r~~~~d-~~ll  137 (249)
T cd01853          61 AFQSETLRVREVSGTVDGFK--LNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPDVVLYVDRLDMYRRDYLD-LPLL  137 (249)
T ss_pred             CCCCceEEEEEEEEEECCeE--EEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCCEEEEEEcCCCCCCCHHH-HHHH
Confidence            34444443333344556655  4569999986541  1 1       122332  578888887665421 2221 1233


Q ss_pred             HHHHhhcCC-CCCcEEEEEeCCCCCC
Q psy11289         77 RQILRVKDR-DEFPMLMVGNKADLDH  101 (159)
Q Consensus        77 ~~i~~~~~~-~~~p~ivv~nK~D~~~  101 (159)
                      +.+....+. --.++++|.||+|...
T Consensus       138 k~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         138 RAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             HHHHHHhChhhHhCEEEEEeCCccCC
Confidence            334332221 1247999999999753

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.79  E-value=0.0034  Score=47.03  Aligned_cols=93  Identities=22%  Similarity=0.177  Sum_probs=60.5

Q ss_pred             CCCc-ccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH
Q psy11289         37 TAGQ-EEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR  115 (159)
Q Consensus        37 ~~g~-~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~  115 (159)
                      .+|+ .++..........+|.++-|.|+.+|.+-..     ..+.++.  .+.|.++|+||.|+..... ..+=...+.+
T Consensus        17 ~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~-----~~l~~~v--~~k~~i~vlNK~DL~~~~~-~~~W~~~~~~   88 (322)
T COG1161          17 FPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN-----PELERIV--KEKPKLLVLNKADLAPKEV-TKKWKKYFKK   88 (322)
T ss_pred             CCCchHHHHHHHHHhcccCCEEEEEEeccccccccC-----ccHHHHH--ccCCcEEEEehhhcCCHHH-HHHHHHHHHh
Confidence            3665 3445566777889999999999999876543     2233332  3456699999999976332 2222334444


Q ss_pred             HcCCcEEEeCCCCCCCHHHHHH
Q psy11289        116 QLRIPYIECSAKVRINVDQAFH  137 (159)
Q Consensus       116 ~~~~~~~~~sa~~~~~i~~~~~  137 (159)
                      +.+...+.+++..+.+...+..
T Consensus        89 ~~~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          89 EEGIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             cCCCccEEEEeecccCccchHH
Confidence            4467788888887776555553

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=96.71  E-value=0.026  Score=41.61  Aligned_cols=104  Identities=18%  Similarity=0.236  Sum_probs=62.7

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH-
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA-  110 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-  110 (159)
                      +.|.+|.|--+..   ......+|.+++|.-+.-.+..+-++   ..+.+.      --++|+||.|..+... ...+. 
T Consensus       146 vIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK---~GimEi------aDi~vINKaD~~~A~~-a~r~l~  212 (323)
T COG1703         146 VIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIK---AGIMEI------ADIIVINKADRKGAEK-AARELR  212 (323)
T ss_pred             EEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHH---hhhhhh------hheeeEeccChhhHHH-HHHHHH
Confidence            4557777654422   23345689999888666555555543   233333      3388999999543211 11111 


Q ss_pred             --HHHHH----HcC--CcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        111 --QNVAR----QLR--IPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       111 --~~~~~----~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                        .++..    ..+  -|++.+||..|.|++++++.+.+.......
T Consensus       213 ~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~~~  258 (323)
T COG1703         213 SALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFLTE  258 (323)
T ss_pred             HHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHHHh
Confidence              11111    112  358999999999999999999876654443

>KOG0467|consensus

Probab=96.66  E-value=0.0063  Score=49.78  Aligned_cols=68  Identities=21%  Similarity=0.271  Sum_probs=48.6

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      -+.+.++++|+||+-+|.+......+=+|+.++++|+...---+... .+.+...    .+.-+++|.||+|.
T Consensus        69 ~~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~~-vlrq~~~----~~~~~~lvinkidr  136 (887)
T KOG0467|consen   69 HKDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTYA-VLRQAWI----EGLKPILVINKIDR  136 (887)
T ss_pred             cCceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHHH-HHHHHHH----ccCceEEEEehhhh
Confidence            35577888999999999998888888899999999997642222111 1122222    34567889999994

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.56  E-value=0.0071  Score=41.18  Aligned_cols=44  Identities=20%  Similarity=0.176  Sum_probs=28.0

Q ss_pred             CEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         55 EGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        55 ~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      |++++|.|+.++.+-.. ..+...+. . ...+.|+++|.||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l-~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-Q-AGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-h-ccCCCCEEEEEehhhcCC
Confidence            78999999988643221 11222211 1 114589999999999864

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

>KOG1424|consensus

Probab=96.52  E-value=0.0067  Score=47.57  Aligned_cols=75  Identities=16%  Similarity=0.196  Sum_probs=50.5

Q ss_pred             chHHHHHHhhcCCEEEEEEECCChhhH--HHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHH---HHHc
Q psy11289         43 FSAMREQYMRSGEGFLLVFSVTDRNSF--EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNV---ARQL  117 (159)
Q Consensus        43 ~~~~~~~~~~~~~~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~---~~~~  117 (159)
                      ++++|.. ++.+|+|+.++|+.+|-=|  .++..+...+     .+.+..+++.||.||..     .+....+   ..+.
T Consensus       165 WRQLWRV-lErSDivvqIVDARnPllfr~~dLe~Yvke~-----d~~K~~~LLvNKaDLl~-----~~qr~aWa~YF~~~  233 (562)
T KOG1424|consen  165 WRQLWRV-LERSDIVVQIVDARNPLLFRSPDLEDYVKEV-----DPSKANVLLVNKADLLP-----PEQRVAWAEYFRQN  233 (562)
T ss_pred             HHHHHHH-HhhcceEEEEeecCCccccCChhHHHHHhcc-----ccccceEEEEehhhcCC-----HHHHHHHHHHHHhc
Confidence            3444443 4678999999999998544  2334443332     24578899999999975     4444444   4455


Q ss_pred             CCcEEEeCCCC
Q psy11289        118 RIPYIECSAKV  128 (159)
Q Consensus       118 ~~~~~~~sa~~  128 (159)
                      +++++.-||+.
T Consensus       234 ni~~vf~SA~~  244 (562)
T KOG1424|consen  234 NIPVVFFSALA  244 (562)
T ss_pred             CceEEEEeccc
Confidence            79999999886

>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=96.48  E-value=0.0023  Score=46.09  Aligned_cols=99  Identities=18%  Similarity=0.211  Sum_probs=57.4

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ  111 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  111 (159)
                      +.|.+|.|--+..   .....-+|.+++|..+.-.+..+.++.   .+.+.      +-++|+||.|.+..+.. ..+..
T Consensus       124 ~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~Ka---GimEi------aDi~vVNKaD~~gA~~~-~~~l~  190 (266)
T PF03308_consen  124 VIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKA---GIMEI------ADIFVVNKADRPGADRT-VRDLR  190 (266)
T ss_dssp             EEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-T---THHHH-------SEEEEE--SHHHHHHH-HHHHH
T ss_pred             EEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhh---hhhhh------ccEEEEeCCChHHHHHH-HHHHH
Confidence            3446666543221   233567899999998877666655432   23333      33899999996432211 11111


Q ss_pred             HHHHH-------cCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        112 NVARQ-------LRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       112 ~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ....-       +.-|++.+||.++.|++++++.+.+.-
T Consensus       191 ~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~  229 (266)
T PF03308_consen  191 SMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHR  229 (266)
T ss_dssp             HHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             HHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence            11111       124699999999999999999988644

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.

>KOG0464|consensus

Probab=96.44  E-value=0.0012  Score=50.51  Aligned_cols=76  Identities=21%  Similarity=0.286  Sum_probs=57.0

Q ss_pred             EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         20 TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        20 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +.-+..+=+-.+++++||||+-.|+-..+.+++--||++.|||.+-.-.-+.+.-|.+.     +..++|-....||+|.
T Consensus        92 saav~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasagve~qtltvwrqa-----dk~~ip~~~finkmdk  166 (753)
T KOG0464|consen   92 SAAVNFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQA-----DKFKIPAHCFINKMDK  166 (753)
T ss_pred             eeeeecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehhc-----cccCCchhhhhhhhhh
Confidence            33344454556677899999999988899999999999999999875555555556432     2356788888999996


Q ss_pred             C
Q psy11289        100 D  100 (159)
Q Consensus       100 ~  100 (159)
                      .
T Consensus       167 ~  167 (753)
T KOG0464|consen  167 L  167 (753)
T ss_pred             h
Confidence            3

>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=96.37  E-value=0.088  Score=35.74  Aligned_cols=91  Identities=9%  Similarity=0.094  Sum_probs=69.0

Q ss_pred             cCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCH
Q psy11289         53 SGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINV  132 (159)
Q Consensus        53 ~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  132 (159)
                      ..|-|+|++|.+..-|+..++.=+..+...-- .+ -+.++++.....+.-.+...+..+++..+.+|++.+.-.+.++.
T Consensus        64 rIDlIVFvinl~sk~SL~~ve~SL~~vd~~ff-lG-KVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~  141 (176)
T PF11111_consen   64 RIDLIVFVINLHSKYSLQSVEASLSHVDPSFF-LG-KVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGR  141 (176)
T ss_pred             eeEEEEEEEecCCcccHHHHHHHHhhCChhhh-cc-ceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHH
Confidence            46999999999999999888755544422111 12 34555666655555678889999999999999999999999888


Q ss_pred             HHHHHHHHHHHHh
Q psy11289        133 DQAFHELVRIVLL  145 (159)
Q Consensus       133 ~~~~~~l~~~~~~  145 (159)
                      ..+=+.+++.+.-
T Consensus       142 ~~lAqRLL~~lqi  154 (176)
T PF11111_consen  142 TSLAQRLLRMLQI  154 (176)
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877653

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 [].

>KOG1954|consensus

Probab=96.22  E-value=0.017  Score=43.87  Aligned_cols=67  Identities=22%  Similarity=0.273  Sum_probs=46.7

Q ss_pred             EEEEEeCCCccc-----------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         31 RLDILDTAGQEE-----------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        31 ~~~l~D~~g~~~-----------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      ++.+.||||.-.           |....+.|...+|.|+++||+...+--++..+.+..+...    .=-+-||.||.|.
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~----EdkiRVVLNKADq  223 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH----EDKIRVVLNKADQ  223 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC----cceeEEEeccccc
Confidence            367799998522           3445677889999999999998765544544444554443    2356788999997


Q ss_pred             CC
Q psy11289        100 DH  101 (159)
Q Consensus       100 ~~  101 (159)
                      .+
T Consensus       224 Vd  225 (532)
T KOG1954|consen  224 VD  225 (532)
T ss_pred             cC
Confidence            55

>KOG0410|consensus

Probab=96.07  E-value=0.015  Score=43.36  Aligned_cols=108  Identities=16%  Similarity=0.110  Sum_probs=68.5

Q ss_pred             CCeeEEEEEEeCCCcccc--hHHHHHH------hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc----EEEE
Q psy11289         26 DDIPARLDILDTAGQEEF--SAMREQY------MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP----MLMV   93 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~--~~~~~~~------~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p----~ivv   93 (159)
                      +|..+.+  .||.|.-.-  ..+...|      ...+|.++-|.|+++|+.-.+....+.-+.+.. -++.|    ++=|
T Consensus       224 sg~~vll--tDTvGFisdLP~~LvaAF~ATLeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~ig-v~~~pkl~~mieV  300 (410)
T KOG0410|consen  224 SGNFVLL--TDTVGFISDLPIQLVAAFQATLEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIG-VPSEPKLQNMIEV  300 (410)
T ss_pred             CCcEEEE--eechhhhhhCcHHHHHHHHHHHHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcC-CCcHHHHhHHHhh
Confidence            5666555  999987432  1233333      467899999999999988777665555554432 22233    3345


Q ss_pred             EeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         94 GNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        94 ~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      =||.|..+... +.       +..+  .+.+||++|+|++++.+.+-..+...
T Consensus       301 dnkiD~e~~~~-e~-------E~n~--~v~isaltgdgl~el~~a~~~kv~~~  343 (410)
T KOG0410|consen  301 DNKIDYEEDEV-EE-------EKNL--DVGISALTGDGLEELLKAEETKVASE  343 (410)
T ss_pred             ccccccccccC-cc-------ccCC--ccccccccCccHHHHHHHHHHHhhhh
Confidence            68888643221 11       1122  68899999999999988877665543

>KOG1486|consensus

Probab=95.94  E-value=0.17  Score=36.71  Aligned_cols=60  Identities=17%  Similarity=0.155  Sum_probs=40.6

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHH-------HHHhhcCCEEEEEEECCChhhH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMR-------EQYMRSGEGFLLVFSVTDRNSF   69 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~-------~~~~~~~~~ii~v~d~~~~~s~   69 (159)
                      ...|.-|+-.+....+..+|-.+  |+.|.||...-.+..       -...+.||.+++|.|++..+.-
T Consensus        89 aA~yeFTTLtcIpGvi~y~ga~I--QllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk~e~q  155 (364)
T KOG1486|consen   89 AASYEFTTLTCIPGVIHYNGANI--QLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATKSEDQ  155 (364)
T ss_pred             hhceeeeEEEeecceEEecCceE--EEecCcccccccccCCCCCceEEEEeecccEEEEEecCCcchhH
Confidence            34555666666666777788775  559999875433322       2235789999999999876543

>KOG1143|consensus

Probab=95.90  E-value=0.07  Score=40.74  Aligned_cols=100  Identities=17%  Similarity=0.197  Sum_probs=60.3

Q ss_pred             EEEEEeCCCcccchHHHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC---
Q psy11289         31 RLDILDTAGQEEFSAMREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV---  105 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~---  105 (159)
                      .+.+.|.+|+.+|....-.-+  -..|..++|+++...-..-. .+-+..+..    .++|+.++.+|+|+.....+   
T Consensus       250 lvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLgl~~A----L~iPfFvlvtK~Dl~~~~~~~~t  324 (591)
T KOG1143|consen  250 LVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLGLIAA----LNIPFFVLVTKMDLVDRQGLKKT  324 (591)
T ss_pred             eEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHHHHHH----hCCCeEEEEEeeccccchhHHHH
Confidence            356699999999865322222  14588888888876433211 111122222    57899999999999543211   


Q ss_pred             ---------------------CHHHHHHHHHHcC----CcEEEeCCCCCCCHHHH
Q psy11289        106 ---------------------SSMDAQNVARQLR----IPYIECSAKVRINVDQA  135 (159)
Q Consensus       106 ---------------------~~~~~~~~~~~~~----~~~~~~sa~~~~~i~~~  135 (159)
                                           +.+++...+++.-    +|++-+|+.+|.|+.-+
T Consensus       325 v~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll  379 (591)
T KOG1143|consen  325 VKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLL  379 (591)
T ss_pred             HHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHH
Confidence                                 2233333333321    57889999999998654

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=95.73  E-value=0.25  Score=37.87  Aligned_cols=106  Identities=15%  Similarity=0.096  Sum_probs=51.4

Q ss_pred             EEEEeCCCcccchHHHHHH-----hhcCCEEEEEEECCChhhHHHHHHHH-HHHHhhcCCCCCcEEEEEeCCCC--C---
Q psy11289         32 LDILDTAGQEEFSAMREQY-----MRSGEGFLLVFSVTDRNSFEEIYKFH-RQILRVKDRDEFPMLMVGNKADL--D---  100 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~-----~~~~~~ii~v~d~~~~~s~~~~~~~~-~~i~~~~~~~~~p~ivv~nK~D~--~---  100 (159)
                      +.+||.||..........|     +...|.+|++.+-.    |....-++ ..+.+    .++|+.+|-+|.|.  .   
T Consensus        88 v~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s~r----f~~ndv~La~~i~~----~gK~fyfVRTKvD~Dl~~~~  159 (376)
T PF05049_consen   88 VTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISSER----FTENDVQLAKEIQR----MGKKFYFVRTKVDSDLYNER  159 (376)
T ss_dssp             EEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEESSS------HHHHHHHHHHHH----TT-EEEEEE--HHHHHHHHH
T ss_pred             CeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeCCC----CchhhHHHHHHHHH----cCCcEEEEEecccccHhhhh
Confidence            4559999975433333444     45679888877532    33322222 33333    57899999999995  1   


Q ss_pred             --CcCCCCHH----HHHHHHHH----cCC---cEEEeCCCCC--CCHHHHHHHHHHHHHh
Q psy11289        101 --HQRQVSSM----DAQNVARQ----LRI---PYIECSAKVR--INVDQAFHELVRIVLL  145 (159)
Q Consensus       101 --~~~~~~~~----~~~~~~~~----~~~---~~~~~sa~~~--~~i~~~~~~l~~~~~~  145 (159)
                        .++..+.+    +.++.+.+    .|+   ++|-+|+.+-  .++..+.+.+.+.+..
T Consensus       160 ~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~  219 (376)
T PF05049_consen  160 RRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPA  219 (376)
T ss_dssp             CC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-G
T ss_pred             ccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHH
Confidence              12233322    22333322    244   4899999864  4677777777765543

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.

>KOG0469|consensus

Probab=95.58  E-value=0.023  Score=44.84  Aligned_cols=69  Identities=20%  Similarity=0.288  Sum_probs=49.1

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      ++..+.++++|.||+-.|.+.....++-.||.++|+|..+.--.+.-.-+.+.+.+     .+-.+++.||.|.
T Consensus        94 d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~E-----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   94 DGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAE-----RIKPVLVMNKMDR  162 (842)
T ss_pred             CCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHh-----hccceEEeehhhH
Confidence            34567889999999999999888889999999999999775333221122223322     3344667999995

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.56  E-value=0.33  Score=35.58  Aligned_cols=93  Identities=18%  Similarity=0.179  Sum_probs=56.3

Q ss_pred             EEEEEEeCCCcccchHHH----HHH---hh-----cCCEEEEEEECCCh-hhHHHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         30 ARLDILDTAGQEEFSAMR----EQY---MR-----SGEGFLLVFSVTDR-NSFEEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~----~~~---~~-----~~~~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +.+-|.||+|........    ..+   ..     .+|.+++|.|++-. +.+..+    ..+.+..    .+.-+|.||
T Consensus       155 ~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~----~~f~~~~----~~~g~IlTK  226 (272)
T TIGR00064       155 IDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQA----KVFNEAV----GLTGIILTK  226 (272)
T ss_pred             CCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHH----HHHHhhC----CCCEEEEEc
Confidence            456679999986543221    111   11     37999999999753 333333    2222221    135678999


Q ss_pred             CCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHH
Q psy11289         97 ADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF  136 (159)
Q Consensus        97 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  136 (159)
                      .|.....    -.+...+...++|+..++  +|++++++-
T Consensus       227 lDe~~~~----G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       227 LDGTAKG----GIILSIAYELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             cCCCCCc----cHHHHHHHHHCcCEEEEe--CCCChHhCc
Confidence            9964322    344566667789988888  777776653

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.

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=95.35  E-value=0.3  Score=35.65  Aligned_cols=80  Identities=18%  Similarity=0.186  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      ..+-+.|+|---.  -..-..+.++|.+|+|-.++ +.++.++++.++....    -++|..+|.||.+...      .+
T Consensus       164 ~~~~IIDsaaG~g--CpVi~sl~~aD~ai~VTEPT-p~glhD~kr~~el~~~----f~ip~~iViNr~~~g~------s~  230 (284)
T COG1149         164 ADLLIIDSAAGTG--CPVIASLKGADLAILVTEPT-PFGLHDLKRALELVEH----FGIPTGIVINRYNLGD------SE  230 (284)
T ss_pred             cceeEEecCCCCC--ChHHHhhccCCEEEEEecCC-ccchhHHHHHHHHHHH----hCCceEEEEecCCCCc------hH
Confidence            3556677763221  12345578999999988776 5567777665555444    5789999999996432      27


Q ss_pred             HHHHHHHcCCcEE
Q psy11289        110 AQNVARQLRIPYI  122 (159)
Q Consensus       110 ~~~~~~~~~~~~~  122 (159)
                      ..+++.+.|++++
T Consensus       231 ie~~~~e~gi~il  243 (284)
T COG1149         231 IEEYCEEEGIPIL  243 (284)
T ss_pred             HHHHHHHcCCCee
Confidence            7889999888754

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=95.13  E-value=0.27  Score=32.04  Aligned_cols=65  Identities=15%  Similarity=0.210  Sum_probs=44.0

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +.+.++|+|+..  .......+..+|.++++.+.+ +.++..+...++.+.+..  ...++.+|.|+.+.
T Consensus        45 yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~--~~~~~~lVvN~~~~  109 (139)
T cd02038          45 YDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL--RVLNFRVVVNRAES  109 (139)
T ss_pred             CCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc--CCCCEEEEEeCCCC
Confidence            456779999753  333456788999999999875 555655555555554432  34567789999974

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.02  E-value=0.4  Score=35.97  Aligned_cols=92  Identities=20%  Similarity=0.126  Sum_probs=55.7

Q ss_pred             EEEEEEeCCCcccchHH----HHHHh--------hcCCEEEEEEECCCh-hhHHHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         30 ARLDILDTAGQEEFSAM----REQYM--------RSGEGFLLVFSVTDR-NSFEEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~----~~~~~--------~~~~~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +.+.|.||+|.......    ...+.        ...+..++|.|++.. +++..+..    +.+..    .+.-+|.||
T Consensus       197 ~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~----f~~~~----~~~giIlTK  268 (318)
T PRK10416        197 IDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKA----FHEAV----GLTGIILTK  268 (318)
T ss_pred             CCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHH----HHhhC----CCCEEEEEC
Confidence            45667999998653221    11111        246788999999853 33333322    21211    244678999


Q ss_pred             CCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHH
Q psy11289         97 ADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQA  135 (159)
Q Consensus        97 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  135 (159)
                      .|.....    -.+...+...++|+..++  +|++++++
T Consensus       269 lD~t~~~----G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl  301 (318)
T PRK10416        269 LDGTAKG----GVVFAIADELGIPIKFIG--VGEGIDDL  301 (318)
T ss_pred             CCCCCCc----cHHHHHHHHHCCCEEEEe--CCCChhhC
Confidence            9954322    244566677799988888  77888766

>KOG0459|consensus

Probab=94.89  E-value=0.068  Score=41.08  Aligned_cols=104  Identities=21%  Similarity=0.199  Sum_probs=61.4

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hHHHHH--HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SFEEIY--KFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~~~~~--~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++.+-|.||+..|-+..-.-...||.-++|.++...+   .|+.=.  +-...+.+..  .-...|++.||+|-+.. .+
T Consensus       158 ~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~--gv~~lVv~vNKMddPtv-nW  234 (501)
T KOG0459|consen  158 RFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA--GVKHLIVLINKMDDPTV-NW  234 (501)
T ss_pred             eEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhh--ccceEEEEEEeccCCcc-Cc
Confidence            3455999999988664444456788888888774322   232211  1111122211  23578999999996532 12


Q ss_pred             C---HH----HHHHHHHHcC------CcEEEeCCCCCCCHHHHHH
Q psy11289        106 S---SM----DAQNVARQLR------IPYIECSAKVRINVDQAFH  137 (159)
Q Consensus       106 ~---~~----~~~~~~~~~~------~~~~~~sa~~~~~i~~~~~  137 (159)
                      +   .+    ....|...+|      ..+++||..+|.++.+..+
T Consensus       235 s~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  235 SNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             chhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            2   12    2233444444      3489999999999887654

>PHA02518 ParA-like protein; Provisional

Probab=94.76  E-value=0.6  Score=32.31  Aligned_cols=67  Identities=15%  Similarity=0.168  Sum_probs=40.8

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~   99 (159)
                      .+.+.|+|+||..  .......+..+|.+|++..++..  .+...+.+++..+....  ...| ..++.|+.+.
T Consensus        76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~--~~~~~~~iv~n~~~~  145 (211)
T PHA02518         76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVT--DGLPKFAFIISRAIK  145 (211)
T ss_pred             cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhC--CCCceEEEEEeccCC
Confidence            3556779999874  34566777899999999887632  23344444444433322  2344 3456677653

>PRK14974 cell division protein FtsY; Provisional

Probab=94.53  E-value=0.61  Score=35.32  Aligned_cols=92  Identities=17%  Similarity=0.175  Sum_probs=55.4

Q ss_pred             EEEEEeCCCcccch-HHHH---HH--hhcCCEEEEEEECCChhh-HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         31 RLDILDTAGQEEFS-AMRE---QY--MRSGEGFLLVFSVTDRNS-FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        31 ~~~l~D~~g~~~~~-~~~~---~~--~~~~~~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      .+.|.||+|..... .+..   .+  ..+.|.+++|.|++.... .+.+    ..+.+..   + +--++.||.|....-
T Consensus       224 DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a----~~f~~~~---~-~~giIlTKlD~~~~~  295 (336)
T PRK14974        224 DVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQA----REFNEAV---G-IDGVILTKVDADAKG  295 (336)
T ss_pred             CEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHH----HHHHhcC---C-CCEEEEeeecCCCCc
Confidence            46679999986532 2222   22  235789999999876432 2222    2222211   1 346779999975322


Q ss_pred             CCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHH
Q psy11289        104 QVSSMDAQNVARQLRIPYIECSAKVRINVDQAF  136 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~  136 (159)
                      .    .+...+...+.|+..++  +|++++++.
T Consensus       296 G----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        296 G----AALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             c----HHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence            2    33455556789988887  788887764

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.50  E-value=0.28  Score=35.15  Aligned_cols=75  Identities=19%  Similarity=0.243  Sum_probs=47.4

Q ss_pred             EEEEeCC-CcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC-CcEEEEEeCCCCCCcCCCCHHH
Q psy11289         32 LDILDTA-GQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE-FPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        32 ~~l~D~~-g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~-~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +-+.||- |.+.|.   +...+++|.+|+|.|++. .|+..+.+. .++.+.   .+ .++.+|+||.|-.      ...
T Consensus       136 ~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taeri-~~L~~e---lg~k~i~~V~NKv~e~------e~~  201 (255)
T COG3640         136 VVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAERI-KELAEE---LGIKRIFVVLNKVDEE------EEL  201 (255)
T ss_pred             EEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHHH-HHHHHH---hCCceEEEEEeeccch------hHH
Confidence            3347764 555543   466789999999999864 455554442 333333   34 6899999999942      334


Q ss_pred             HHHHHHHcCCc
Q psy11289        110 AQNVARQLRIP  120 (159)
Q Consensus       110 ~~~~~~~~~~~  120 (159)
                      ....+...+.+
T Consensus       202 ~~~~~~~~~~~  212 (255)
T COG3640         202 LRELAEELGLE  212 (255)
T ss_pred             HHhhhhccCCe
Confidence            55666666654

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=94.44  E-value=1.2  Score=36.86  Aligned_cols=77  Identities=13%  Similarity=0.167  Sum_probs=44.4

Q ss_pred             EEECCeeEEEEEEeCCCcccch-------HH---HHHHhh--cCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC-CCc
Q psy11289         23 CVIDDIPARLDILDTAGQEEFS-------AM---REQYMR--SGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD-EFP   89 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~-------~~---~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~~p   89 (159)
                      ...+|..+  .++||||.....       ..   ...++.  ++|++|+|..++.......-..++..+....+.. -..
T Consensus       161 ~~idG~~L--~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~  238 (763)
T TIGR00993       161 GLVQGVKI--RVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFN  238 (763)
T ss_pred             EEECCceE--EEEECCCCCccccchHHHHHHHHHHHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcC
Confidence            34566654  559999986431       11   122333  5899999988763322112224455555544311 236


Q ss_pred             EEEEEeCCCCCC
Q psy11289         90 MLMVGNKADLDH  101 (159)
Q Consensus        90 ~ivv~nK~D~~~  101 (159)
                      +|||.|+.|..+
T Consensus       239 tIVVFThgD~lp  250 (763)
T TIGR00993       239 AIVTLTHAASAP  250 (763)
T ss_pred             EEEEEeCCccCC
Confidence            888899998764

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.

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=94.39  E-value=0.33  Score=35.49  Aligned_cols=91  Identities=21%  Similarity=0.210  Sum_probs=49.6

Q ss_pred             cCCEEEEEEECCCh-----h--hHHHH----HHHHHHHHhhcCCCCCcEEEEEeCCCCCCc-----CCCCHHHHHHHHHH
Q psy11289         53 SGEGFLLVFSVTDR-----N--SFEEI----YKFHRQILRVKDRDEFPMLMVGNKADLDHQ-----RQVSSMDAQNVARQ  116 (159)
Q Consensus        53 ~~~~ii~v~d~~~~-----~--s~~~~----~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~-----~~~~~~~~~~~~~~  116 (159)
                      ..+|||+++|+.+-     +  .+...    ..-+.++.+..+ ...|+.+|.||+|+...     ..++.+   ...+-
T Consensus        25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg-~~~PVYvv~Tk~D~l~GF~ef~~~L~~~---~r~q~  100 (266)
T PF14331_consen   25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLG-VRLPVYVVFTKCDLLPGFDEFFSDLSEE---EREQV  100 (266)
T ss_pred             CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhC-CCCCeEeeeECCCcccCHHHHHHhCCHH---HHhCC
Confidence            46999999998642     1  12222    223334444333 47899999999998542     112221   22233


Q ss_pred             cCCcEEEeCCCCCCC---HHHHHHHHHHHHHhcc
Q psy11289        117 LRIPYIECSAKVRIN---VDQAFHELVRIVLLHT  147 (159)
Q Consensus       117 ~~~~~~~~sa~~~~~---i~~~~~~l~~~~~~~~  147 (159)
                      +|+.+-.-....+..   +++.|+.+...+....
T Consensus       101 lG~t~~~~~~~~~~~~~~~~~~~~~l~~~L~~~~  134 (266)
T PF14331_consen  101 LGFTFPYDEDADGDAWAWFDEEFDELVARLNARV  134 (266)
T ss_pred             cccccCCccccccchHHHHHHHHHHHHHHHHHHH
Confidence            454432222333344   7777777776665443

>KOG4273|consensus

Probab=94.23  E-value=0.18  Score=36.44  Aligned_cols=44  Identities=23%  Similarity=0.566  Sum_probs=31.0

Q ss_pred             hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCC
Q psy11289         52 RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADL   99 (159)
Q Consensus        52 ~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~   99 (159)
                      ...-+++++||.+....+..++.|+..-    .....-++ -+|||.|.
T Consensus        77 ~pl~a~vmvfdlse~s~l~alqdwl~ht----dinsfdillcignkvdr  121 (418)
T KOG4273|consen   77 EPLQAFVMVFDLSEKSGLDALQDWLPHT----DINSFDILLCIGNKVDR  121 (418)
T ss_pred             cceeeEEEEEeccchhhhHHHHhhcccc----ccccchhheeccccccc
Confidence            4557899999999999999999997532    11222333 35788885

>KOG0448|consensus

Probab=94.12  E-value=0.59  Score=38.42  Aligned_cols=91  Identities=16%  Similarity=0.282  Sum_probs=53.3

Q ss_pred             EEEEeCCCcccc---hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         32 LDILDTAGQEEF---SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        32 ~~l~D~~g~~~~---~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      +.+.|.||..--   .+-...+..++|++|+|..+.+.-+..+ ..++....+    ....+.++.||.|....++-..+
T Consensus       208 ivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~----~KpniFIlnnkwDasase~ec~e  282 (749)
T KOG0448|consen  208 IVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSE----EKPNIFILNNKWDASASEPECKE  282 (749)
T ss_pred             ceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhc----cCCcEEEEechhhhhcccHHHHH
Confidence            567999998532   3345566789999999998877555433 233433333    23346667788898654433333


Q ss_pred             HHHHHHHHcCC--------cEEEeCCC
Q psy11289        109 DAQNVARQLRI--------PYIECSAK  127 (159)
Q Consensus       109 ~~~~~~~~~~~--------~~~~~sa~  127 (159)
                      ....-..+++.        .++.+||+
T Consensus       283 ~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  283 DVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             HHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            33222223321        27888854

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=94.06  E-value=1.3  Score=33.92  Aligned_cols=83  Identities=11%  Similarity=0.217  Sum_probs=59.1

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      .+-+.++|.|  ..+......++..+|-+++|.+.+ -.++...+++++.+.+... ...+..++.||.+...  ..+  
T Consensus       217 ~~~~vV~Dlp--~~~~~~t~~vL~~Sd~iviv~e~s-l~slR~ak~lld~l~~~r~-~~~~p~lv~n~~~~~~--~~~--  288 (366)
T COG4963         217 SFDFVVVDLP--NIWTDWTRQVLSGSDEIVIVAEPS-LASLRNAKELLDELKRLRP-NDPKPILVLNRVGVPK--RPE--  288 (366)
T ss_pred             cCCeEEEcCC--CccchHHHHHHhcCCeEEEEeccc-HHHHHHHHHHHHHHHHhCC-CCCCceEEeeecCCCC--CCC--
Confidence            4556779999  334556778889999999999874 6688888899888877754 4667888899998543  222  


Q ss_pred             HHHHHHHHcCCc
Q psy11289        109 DAQNVARQLRIP  120 (159)
Q Consensus       109 ~~~~~~~~~~~~  120 (159)
                       ..++...++++
T Consensus       289 -~~dl~~~~~i~  299 (366)
T COG4963         289 -PSDLEEILGIE  299 (366)
T ss_pred             -HHHHHHHhCCc
Confidence             34455555543

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=94.02  E-value=1.2  Score=29.87  Aligned_cols=84  Identities=12%  Similarity=0.079  Sum_probs=50.9

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA  110 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  110 (159)
                      .+.++|+|+....  .....+..+|.++++.+.+. .++..+..+++.+...   ......++.|+.+...  ....+..
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~--~~~~~~~  135 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEAL---GIKVVGVIVNRVRPDM--VEGGDMV  135 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHc---CCceEEEEEeCCcccc--cchhhHH
Confidence            4667999976432  23445678999999987753 4555665655555442   2234668899998532  1122223


Q ss_pred             HHHHHHcCCcEE
Q psy11289        111 QNVARQLRIPYI  122 (159)
Q Consensus       111 ~~~~~~~~~~~~  122 (159)
                      ..+.+.++.+++
T Consensus       136 ~~~~~~~~~~v~  147 (179)
T cd02036         136 EDIEEILGVPLL  147 (179)
T ss_pred             HHHHHHhCCCEE
Confidence            455566777754

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.

>cd01900 YchF YchF subfamily

Probab=93.88  E-value=0.18  Score=37.02  Aligned_cols=58  Identities=16%  Similarity=0.236  Sum_probs=35.8

Q ss_pred             ccccccccccceEEEEEEECCe---------------eEEEEEEeCCCcccch----HHHHHH---hhcCCEEEEEEECC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDI---------------PARLDILDTAGQEEFS----AMREQY---MRSGEGFLLVFSVT   64 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~---------------~~~~~l~D~~g~~~~~----~~~~~~---~~~~~~ii~v~d~~   64 (159)
                      -+++|+.|+-+.....+.+.+.               ...+++.|+||..+-.    .+...+   ++.+|++++|+|..
T Consensus        24 ~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          24 EAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             ccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhHHHHHHHHHHHhCCEEEEEEeCc
Confidence            3556777665444444444432               2357889999975422    233333   56899999999873

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.

>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=93.58  E-value=1.1  Score=27.80  Aligned_cols=63  Identities=11%  Similarity=0.062  Sum_probs=41.2

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      .+.+.|+|+....  .....+..+|.++++.+. ++.++..+.++++.+.+........+.+|+|+
T Consensus        44 D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLDE--VSLAALDQADRVFLVTQQ-DLPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcCH--HHHHHHHHcCeEEEEecC-ChHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            4567999986532  334567889999998876 45667777777766665432113456677765

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.

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=93.50  E-value=0.85  Score=36.68  Aligned_cols=70  Identities=11%  Similarity=0.098  Sum_probs=50.0

Q ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC--CCCCHHHHHHHHHHHHH
Q psy11289         69 FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK--VRINVDQAFHELVRIVL  144 (159)
Q Consensus        69 ~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~--~~~~i~~~~~~l~~~~~  144 (159)
                      +.++.+-++.+.+    -++|++|+.||+|...+.+  .+..+++|++.|+++..+..-  =|.|--++-+.+++.+.
T Consensus       358 l~NL~RHIenvr~----FGvPvVVAINKFd~DTe~E--i~~I~~~c~e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        358 FANLERHIENIRK----FGVPVVVAINKFVTDTDAE--IAALKELCEELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             HHHHHHHHHHHHH----cCCCEEEEEeCCCCCCHHH--HHHHHHHHHHcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            4555555555544    4789999999999754322  456789999999998755543  46788888888887775

>KOG2484|consensus

Probab=93.50  E-value=0.22  Score=38.26  Aligned_cols=66  Identities=15%  Similarity=0.118  Sum_probs=43.7

Q ss_pred             ccchHHHHHHhhcCCEEEEEEECCChhhH--HHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH
Q psy11289         41 EEFSAMREQYMRSGEGFLLVFSVTDRNSF--EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ  116 (159)
Q Consensus        41 ~~~~~~~~~~~~~~~~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  116 (159)
                      ..|.......++.+|+||-|.|+.||.+=  .++.+|+   .+..  .++-.|+|.||.|+..     .+....|...
T Consensus       134 kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~V---~~~~--gnKkLILVLNK~DLVP-----rEv~e~Wl~Y  201 (435)
T KOG2484|consen  134 KAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEAV---LQAH--GNKKLILVLNKIDLVP-----REVVEKWLVY  201 (435)
T ss_pred             HHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHHH---Hhcc--CCceEEEEeehhccCC-----HHHHHHHHHH
Confidence            34555555667889999999999998763  3344443   2222  3478999999999864     3444445443

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=93.25  E-value=1.4  Score=30.81  Aligned_cols=90  Identities=11%  Similarity=0.052  Sum_probs=53.0

Q ss_pred             eEEEEEEeCCCcccchHHHH-HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMRE-QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQVS  106 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~-~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~~~  106 (159)
                      .+.+.+.|++|..-...... ...+-+|.++++... +..++..+.+.++.+.......+.+ ..++.|+.+..    ..
T Consensus       116 ~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p-~~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~----~~  190 (212)
T cd02117         116 DLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSG-EFMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD----RE  190 (212)
T ss_pred             CCCEEEEecCCCceecccccccccccCcEEEEEecc-cHHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc----cH
Confidence            45667799976543222111 112468999999976 4556656655555555543222333 44889999843    22


Q ss_pred             HHHHHHHHHHcCCcEEE
Q psy11289        107 SMDAQNVARQLRIPYIE  123 (159)
Q Consensus       107 ~~~~~~~~~~~~~~~~~  123 (159)
                      .+...++.+.++.+++.
T Consensus       191 ~~~~~~~~~~~~~~vl~  207 (212)
T cd02117         191 TELIDAFAERLGTQVIH  207 (212)
T ss_pred             HHHHHHHHHHcCCCEEE
Confidence            44556777777876544

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=92.51  E-value=2  Score=31.16  Aligned_cols=85  Identities=9%  Similarity=0.071  Sum_probs=49.9

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCcCCCCH
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQRQVSS  107 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~~~~~~  107 (159)
                      .+.+.|+||+|...... ....+.-+|.+|++... +..++..+.+.+..+.......+.++. ++.|+.+.       .
T Consensus       117 ~yD~viIDt~g~~~~~~-~~~~l~~AD~viip~~~-~~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~-------~  187 (270)
T PRK13185        117 DYDVILFDVLGDVVCGG-FAAPLQYADYALIVTAN-DFDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSAG-------T  187 (270)
T ss_pred             cCCEEEEecCCCcccCc-ccchhhhCcEEEEEecC-chhhHHHHHHHHHHHHhhhhccCCCceEEEEeccCh-------H
Confidence            35667799987642221 22335678999998865 556666666555554433222455644 77898762       2


Q ss_pred             HHHHHHHHHcCCcEE
Q psy11289        108 MDAQNVARQLRIPYI  122 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~  122 (159)
                      +...++.+.++.+++
T Consensus       188 ~~~~~~~~~~g~~vl  202 (270)
T PRK13185        188 DLIDKFNEAVGLKVL  202 (270)
T ss_pred             HHHHHHHHHcCCCEE
Confidence            344566666665543

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=92.49  E-value=2.8  Score=29.76  Aligned_cols=66  Identities=11%  Similarity=0.112  Sum_probs=41.7

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .+-++|+|+..  .......+..+|.++++...+ ..++..+.+.+..+.+.. ....+.-++.|+.|..
T Consensus       116 D~viiD~pp~~--~~~~~~~l~~ad~vii~~~~~-~~s~~~~~~~~~~l~~~~-~~~~~~~iv~n~~~~~  181 (246)
T TIGR03371       116 DWVLIDVPRGP--SPITRQALAAADLVLVVVNAD-AACYATLHQQALALFAGS-GPRIGPHFLINQFDPA  181 (246)
T ss_pred             CEEEEECCCCc--hHHHHHHHHhCCeEEEEeCCC-HHHHHHHHHHHHHHhhcc-cccccceEEeeccCcc
Confidence            45669999853  345567778899999999874 455555553333333311 1234567889998853

Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.

>PF09419 PGP_phosphatase: Mitochondrial PGP phosphatase; InterPro: IPR010021 This group of hypothetical proteins is a part of the IIIA subfamily of the haloacid dehalogenase (HAD) superfamily of hydrolases

Probab=92.44  E-value=2.4  Score=28.83  Aligned_cols=86  Identities=15%  Similarity=0.157  Sum_probs=57.6

Q ss_pred             hhcCCEEEEEEECCC-------hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEE
Q psy11289         51 MRSGEGFLLVFSVTD-------RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE  123 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~-------~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  123 (159)
                      ++....=.+++|.++       .+-..++..|+.++.+..  ...-+++|-|-.-..+  .....++..+++.+|++++.
T Consensus        36 Lk~~Gik~li~DkDNTL~~~~~~~i~~~~~~~~~~l~~~~--~~~~v~IvSNsaGs~~--d~~~~~a~~~~~~lgIpvl~  111 (168)
T PF09419_consen   36 LKKKGIKALIFDKDNTLTPPYEDEIPPEYAEWLNELKKQF--GKDRVLIVSNSAGSSD--DPDGERAEALEKALGIPVLR  111 (168)
T ss_pred             hhhcCceEEEEcCCCCCCCCCcCcCCHHHHHHHHHHHHHC--CCCeEEEEECCCCccc--CccHHHHHHHHHhhCCcEEE
Confidence            444455556667766       122456778888887753  2224788887763222  33467888999999999999


Q ss_pred             eCCCCCCCHHHHHHHHH
Q psy11289        124 CSAKVRINVDQAFHELV  140 (159)
Q Consensus       124 ~sa~~~~~i~~~~~~l~  140 (159)
                      -+++...+..++...+-
T Consensus       112 h~~kKP~~~~~i~~~~~  128 (168)
T PF09419_consen  112 HRAKKPGCFREILKYFK  128 (168)
T ss_pred             eCCCCCccHHHHHHHHh
Confidence            99988877777666553

All characterised members of this subfamily and most characterised members of the HAD superfamily are phosphatases. HAD superfamily phosphatases contain active site residues in several conserved catalytic motifs [], all of which are found conserved here. This family consists of sequences from fungi, plants, cyanobacteria, Gram-positive bacteria and Deinococcus. There is presently no characterisation of any sequence in this family.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=92.18  E-value=0.58  Score=41.30  Aligned_cols=66  Identities=26%  Similarity=0.336  Sum_probs=43.5

Q ss_pred             EEeCCCcc--------cchHHHHHHh---------hcCCEEEEEEECCCh-----hhH----HHHHHHHHHHHhhcCCCC
Q psy11289         34 ILDTAGQE--------EFSAMREQYM---------RSGEGFLLVFSVTDR-----NSF----EEIYKFHRQILRVKDRDE   87 (159)
Q Consensus        34 l~D~~g~~--------~~~~~~~~~~---------~~~~~ii~v~d~~~~-----~s~----~~~~~~~~~i~~~~~~~~   87 (159)
                      ++||+|..        .....|..++         +..+|||+++|+.+-     +..    ..+...+.++.+..+ ..
T Consensus       165 liDtaG~y~~~~~~~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg-~~  243 (1169)
T TIGR03348       165 LIDTAGRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLG-AR  243 (1169)
T ss_pred             EEcCCCccccCCCcccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhC-CC
Confidence            58999842        1233455553         357999999998663     211    233445555555544 47


Q ss_pred             CcEEEEEeCCCCC
Q psy11289         88 FPMLMVGNKADLD  100 (159)
Q Consensus        88 ~p~ivv~nK~D~~  100 (159)
                      .|+.++.+|+|+.
T Consensus       244 ~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       244 FPVYLVLTKADLL  256 (1169)
T ss_pred             CCEEEEEecchhh
Confidence            9999999999975

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0447|consensus

Probab=91.73  E-value=2.6  Score=34.21  Aligned_cols=81  Identities=16%  Similarity=0.234  Sum_probs=52.9

Q ss_pred             EEEEEeCCCccc-------------chHHHHHHhhcCCEEEEEEECCChhhHHH-HHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         31 RLDILDTAGQEE-------------FSAMREQYMRSGEGFLLVFSVTDRNSFEE-IYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        31 ~~~l~D~~g~~~-------------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~-~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +..+.|.||...             ..++...|+.+.++||+|.--.+-++-.. +..+.    ..++..+.-.|+|.+|
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERSnVTDLV----sq~DP~GrRTIfVLTK  488 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERSIVTDLV----SQMDPHGRRTIFVLTK  488 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhhhHHHHH----HhcCCCCCeeEEEEee
Confidence            566789998532             23567889999999999984332222211 22222    3334456789999999


Q ss_pred             CCCCCcCCCCHHHHHHHHH
Q psy11289         97 ADLDHQRQVSSMDAQNVAR  115 (159)
Q Consensus        97 ~D~~~~~~~~~~~~~~~~~  115 (159)
                      .|+.+..-.++.-++....
T Consensus       489 VDlAEknlA~PdRI~kIle  507 (980)
T KOG0447|consen  489 VDLAEKNVASPSRIQQIIE  507 (980)
T ss_pred             cchhhhccCCHHHHHHHHh
Confidence            9998876677766666554

>KOG3929|consensus

Probab=91.73  E-value=0.28  Score=35.72  Aligned_cols=58  Identities=14%  Similarity=0.159  Sum_probs=33.2

Q ss_pred             ccccccceEEEEEEECC--eeEEEEEEeCCCcccchHHHHHHhh----cCCEEEEEEECCChhh
Q psy11289         11 YDPTIEDSYTKQCVIDD--IPARLDILDTAGQEEFSAMREQYMR----SGEGFLLVFSVTDRNS   68 (159)
Q Consensus        11 ~~pt~~~~~~~~~~~~~--~~~~~~l~D~~g~~~~~~~~~~~~~----~~~~ii~v~d~~~~~s   68 (159)
                      ..||.+-.|+.-....|  .+=..++|+.+|......+.+.-+.    ..-.+|++.|+++++.
T Consensus        71 ~~ptlaLEYtygRR~~g~~~kdiaN~WELGgg~~~~~LLsVPit~~~l~~~slIL~LDls~p~~  134 (363)
T KOG3929|consen   71 KPPTLALEYTYGRRAKGHNPKDIANFWELGGGTSLLDLLSVPITGDTLRTFSLILVLDLSKPND  134 (363)
T ss_pred             CCCceeeeeehhhhccCCCchhHHHHHHhcCCccHHHHhcCcccccchhhhhheeeeecCChHH
Confidence            34454444433323322  3334577999998765554443332    1246788999999864

>KOG2423|consensus

Probab=91.43  E-value=1.3  Score=34.46  Aligned_cols=81  Identities=12%  Similarity=0.151  Sum_probs=48.4

Q ss_pred             HHHHHh---hcCCEEEEEEECCChhh--HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc
Q psy11289         46 MREQYM---RSGEGFLLVFSVTDRNS--FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP  120 (159)
Q Consensus        46 ~~~~~~---~~~~~ii~v~d~~~~~s--~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  120 (159)
                      .|..++   ..+|++|-|.|+.||..  -.++..++   .+  ..+.+++|.|.||+||.. ..++..=...+++++-.-
T Consensus       203 IW~ELyKViDSSDVvvqVlDARDPmGTrc~~ve~yl---kk--e~phKHli~vLNKvDLVP-twvt~~Wv~~lSkeyPTi  276 (572)
T KOG2423|consen  203 IWGELYKVIDSSDVVVQVLDARDPMGTRCKHVEEYL---KK--EKPHKHLIYVLNKVDLVP-TWVTAKWVRHLSKEYPTI  276 (572)
T ss_pred             HHHHHHHhhcccceeEEeeeccCCcccccHHHHHHH---hh--cCCcceeEEEeecccccc-HHHHHHHHHHHhhhCcce
Confidence            454443   57899999999999853  23343332   22  236789999999999864 222233334555554433


Q ss_pred             EEEeCCCCCCCH
Q psy11289        121 YIECSAKVRINV  132 (159)
Q Consensus       121 ~~~~sa~~~~~i  132 (159)
                      -|..|--+..|-
T Consensus       277 AfHAsi~nsfGK  288 (572)
T KOG2423|consen  277 AFHASINNSFGK  288 (572)
T ss_pred             eeehhhcCccch
Confidence            455664444443

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=91.19  E-value=1.6  Score=34.19  Aligned_cols=82  Identities=11%  Similarity=0.216  Sum_probs=54.7

Q ss_pred             CCEEEEEEECC--C--hhhHHHHH-HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC-
Q psy11289         54 GEGFLLVFSVT--D--RNSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK-  127 (159)
Q Consensus        54 ~~~ii~v~d~~--~--~~s~~~~~-~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~-  127 (159)
                      .-|+++.-|.+  +  ++++..+. +.+.++.+    -++|++++.|-.+-.  ..-+.+.+.++.++++++++.+++. 
T Consensus       146 TIGiVVTTDGSi~dipRe~Y~eAEervI~ELk~----igKPFvillNs~~P~--s~et~~L~~eL~ekY~vpVlpvnc~~  219 (492)
T PF09547_consen  146 TIGIVVTTDGSITDIPRENYVEAEERVIEELKE----IGKPFVILLNSTKPY--SEETQELAEELEEKYDVPVLPVNCEQ  219 (492)
T ss_pred             ceeEEEecCCCccCCChHHHHHHHHHHHHHHHH----hCCCEEEEEeCCCCC--CHHHHHHHHHHHHHhCCcEEEeehHH
Confidence            35667766664  2  45666665 55666655    568999999988733  2223455667778889998887775 


Q ss_pred             -CCCCHHHHHHHHHH
Q psy11289        128 -VRINVDQAFHELVR  141 (159)
Q Consensus       128 -~~~~i~~~~~~l~~  141 (159)
                       +...|..+++.++.
T Consensus       220 l~~~DI~~Il~~vLy  234 (492)
T PF09547_consen  220 LREEDITRILEEVLY  234 (492)
T ss_pred             cCHHHHHHHHHHHHh
Confidence             45677777777664

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.

>KOG2486|consensus

Probab=91.03  E-value=0.64  Score=34.24  Aligned_cols=103  Identities=14%  Similarity=0.229  Sum_probs=56.9

Q ss_pred             EEEEeCCCc----------ccchHHHHHHhhcCC---EEEEEEECCChhh-HH-HHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         32 LDILDTAGQ----------EEFSAMREQYMRSGE---GFLLVFSVTDRNS-FE-EIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        32 ~~l~D~~g~----------~~~~~~~~~~~~~~~---~ii~v~d~~~~~s-~~-~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +.+.|.||-          ..+..+...|+.+.+   -+.++.|++.+-. -+ ....|+       +..++|..+|.||
T Consensus       185 ~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~-------ge~~VP~t~vfTK  257 (320)
T KOG2486|consen  185 WYEVDLPGYGRAGYGFELPADWDKFTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWL-------GENNVPMTSVFTK  257 (320)
T ss_pred             EEEEecCCcccccCCccCcchHhHhHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHH-------hhcCCCeEEeeeh
Confidence            344899992          234556677764433   3444455544311 11 112333       3368999999999


Q ss_pred             CCCCCcCC----CCHHHHHHHHHH-------cCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         97 ADLDHQRQ----VSSMDAQNVARQ-------LRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        97 ~D~~~~~~----~~~~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      +|......    -+...+......       ...|++.+|+.++.|++.++-.+..
T Consensus       258 ~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  258 CDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             hhhhhhccccccCccccceeehhhccccceeccCCceeeecccccCceeeeeehhh
Confidence            99742110    001111111111       1256888999999999998765543

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=90.92  E-value=4.4  Score=28.92  Aligned_cols=64  Identities=8%  Similarity=-0.021  Sum_probs=43.0

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +.+.|+|+|+....  .....+..+|.++++...+ ..++..+.+.+..+....   ..++.++.|+.+.
T Consensus       112 ~D~viiD~p~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~---~~~~~iviN~~~~  175 (261)
T TIGR01968       112 FDYVIIDCPAGIES--GFRNAVAPADEAIVVTTPE-VSAVRDADRVIGLLEAKG---IEKIHLIVNRLRP  175 (261)
T ss_pred             CCEEEEeCCCCcCH--HHHHHHHhCCeEEEEcCCC-cHHHHHHHHHHHHHHHcC---CCceEEEEeCcCc
Confidence            55677999976432  2344567889999988774 666777766666665532   2356778898874

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=90.85  E-value=4  Score=29.57  Aligned_cols=83  Identities=11%  Similarity=0.114  Sum_probs=46.6

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCcCCCCH
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQRQVSS  107 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~~~~~~  107 (159)
                      .+.+.|.||+|...... ....+..+|.+|++... +..++..+.+.+..+.......+.++. +|.|+.+..       
T Consensus       115 ~yD~vIIDt~g~~~~~~-~~~al~~aD~vlip~~p-~~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~~-------  185 (267)
T cd02032         115 EYDVILFDVLGDVVCGG-FAAPLNYADYALIVTDN-DFDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDKT-------  185 (267)
T ss_pred             cCCEEEEeCCCCccccc-chhhhhhcCEEEEEecC-CcccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCHH-------
Confidence            35567799987643221 22336789999998876 444555555444444332222445543 678998831       


Q ss_pred             HHHHHHHHHcCCc
Q psy11289        108 MDAQNVARQLRIP  120 (159)
Q Consensus       108 ~~~~~~~~~~~~~  120 (159)
                      .....+.+.++.+
T Consensus       186 ~~i~~~~~~~~~~  198 (267)
T cd02032         186 DLIDKFVEAVGMP  198 (267)
T ss_pred             HHHHHHHHhCCCC
Confidence            2334555556654

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>cd03112 CobW_like The function of this protein family is unkown

Probab=90.84  E-value=1.3  Score=29.52  Aligned_cols=64  Identities=16%  Similarity=0.195  Sum_probs=37.7

Q ss_pred             eEEEEEEeCCCcccchHHHHHH--------hhcCCEEEEEEECCChhhH-HHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQY--------MRSGEGFLLVFSVTDRNSF-EEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~--------~~~~~~ii~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      .....+.|++|...-......+        .-..++++++.|+.+.... .....+..++..       .-+++.||+|+
T Consensus        86 ~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~-------ad~ivlnk~dl  158 (158)
T cd03112          86 AFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAF-------ADRILLNKTDL  158 (158)
T ss_pred             CCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHH-------CCEEEEecccC
Confidence            3455679999997544444332        2247899999997653322 122233344433       22678999995

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.

>CHL00175 minD septum-site determining protein; Validated

Probab=90.60  E-value=5.2  Score=29.19  Aligned_cols=65  Identities=5%  Similarity=-0.000  Sum_probs=42.1

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      .+.+.|+|+|+.-.  ......+..+|.+++|.+.+ +.++..+...+..+.+.. .  ...-++.|+.+.
T Consensus       126 ~yD~VIiDtpp~~~--~~~~~~l~~aD~viiV~~p~-~~si~~~~~~~~~l~~~~-~--~~~~lvvN~~~~  190 (281)
T CHL00175        126 GYDYILIDCPAGID--VGFINAIAPAQEAIVVTTPE-ITAIRDADRVAGLLEANG-I--YNVKLLVNRVRP  190 (281)
T ss_pred             CCCEEEEeCCCCCC--HHHHHHHHhcCeeEEEcCCC-hHHHHHHHHHHHHHHHcC-C--CceEEEEeccCh
Confidence            45677899997643  23344556789999988754 566767666666655532 1  235577898874

>TIGR00959 ffh signal recognition particle protein

Probab=90.06  E-value=7.4  Score=30.63  Aligned_cols=86  Identities=19%  Similarity=0.120  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCcccchH-HHHHH-----hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         30 ARLDILDTAGQEEFSA-MREQY-----MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-~~~~~-----~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      +.+.|.||+|...... +....     .-..+.+++|.|.....   ++..+...+....   + ..=+|.||.|.....
T Consensus       183 ~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v---~-i~giIlTKlD~~~~~  255 (428)
T TIGR00959       183 FDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL---G-LTGVVLTKLDGDARG  255 (428)
T ss_pred             CCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC---C-CCEEEEeCccCcccc
Confidence            4466799999754322 11111     23578999999987542   3333333333222   1 234568999953322


Q ss_pred             CCCHHHHHHHHHHcCCcEEEeCC
Q psy11289        104 QVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                          -.+...+...++|+..++.
T Consensus       256 ----G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       256 ----GAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             ----cHHHHHHHHHCcCEEEEeC
Confidence                2356777778888666544

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.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=88.92  E-value=7.1  Score=28.27  Aligned_cols=68  Identities=4%  Similarity=-0.023  Sum_probs=42.7

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC-----CCCCcEEEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD-----RDEFPMLMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-----~~~~p~ivv~nK~D~   99 (159)
                      .+.+.+.|+|+.-...  ....+..+|.++++.+++ ..++..+.+++..+.....     ..+.+..++.|+.+.
T Consensus       113 ~yd~viiD~p~~~~~~--~~~~l~~ad~vivv~~p~-~~sl~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~  185 (270)
T PRK10818        113 DFEFIVCDSPAGIETG--ALMALYFADEAIITTNPE-VSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP  185 (270)
T ss_pred             CCCEEEEeCCCCccHH--HHHHHHhCCeEEEEcCCC-chHHHhHHHHHHHHHHhhccccccccccceEEEEeccCH
Confidence            4667779998765432  334467899999998775 5566666666666543211     112335677888874

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=88.68  E-value=1.6  Score=33.42  Aligned_cols=41  Identities=22%  Similarity=0.212  Sum_probs=30.7

Q ss_pred             CCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcCCcEEEeCCC
Q psy11289         86 DEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      ..+|++.++|+.|...... .  .+..+.++...+.+++.+||.
T Consensus       205 t~KP~lyvaN~~e~~~~~~-n~~~~~i~~~~~~~~~~vV~~sA~  247 (372)
T COG0012         205 TAKPMLYVANVSEDDLANL-NEYVKRLKELAAKENAEVVPVSAA  247 (372)
T ss_pred             hcCCeEEEEECCcccccch-hHHHHHHHHHhhhcCCcEEEeeHH
Confidence            4689999999999754332 2  345567777778889999986

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=88.28  E-value=6.8  Score=30.83  Aligned_cols=86  Identities=14%  Similarity=0.072  Sum_probs=47.7

Q ss_pred             eEEEEEEeCCCcccchH-HHHHH-----hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         29 PARLDILDTAGQEEFSA-MREQY-----MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~-~~~~~-----~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      .+.+.|.||+|...... +....     ..+++-+++|.|++-...-.+.   ...+.+.    -.+.-+|.||.|....
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~---a~~F~~~----~~~~g~IlTKlD~~ar  254 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQ---AKAFKDS----VDVGSVIITKLDGHAK  254 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHH---HHHHHhc----cCCcEEEEECccCCCC
Confidence            35667799999865432 22211     2256889999998754322221   2223221    1256778999996432


Q ss_pred             CCCCHHHHHHHHHHcCCcEEEeC
Q psy11289        103 RQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      .    -.+...+...++|+..++
T Consensus       255 g----G~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       255 G----GGALSAVAATKSPIIFIG  273 (429)
T ss_pred             c----cHHhhhHHHHCCCeEEEc
Confidence            2    123445555677755544

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=87.98  E-value=8.8  Score=30.31  Aligned_cols=85  Identities=15%  Similarity=0.088  Sum_probs=47.7

Q ss_pred             EEEEEeCCCcccchH-HH---HHH--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         31 RLDILDTAGQEEFSA-MR---EQY--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~-~~---~~~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      .+.|.||+|...... +.   ...  ...+|.+++|+|++...   ++......+....   + ..-+|.||.|....- 
T Consensus       177 DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~l---~-i~gvIlTKlD~~a~~-  248 (437)
T PRK00771        177 DVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEAV---G-IGGIIITKLDGTAKG-  248 (437)
T ss_pred             CEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhcC---C-CCEEEEecccCCCcc-
Confidence            567799999865432 11   111  33679999999987642   2222222222211   1 234678999954322 


Q ss_pred             CCHHHHHHHHHHcCCcEEEeCC
Q psy11289        105 VSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                         -.+...+...+.|+..++.
T Consensus       249 ---G~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        249 ---GGALSAVAETGAPIKFIGT  267 (437)
T ss_pred             ---cHHHHHHHHHCcCEEEEec
Confidence               2345666677888665544

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=87.98  E-value=7  Score=28.28  Aligned_cols=69  Identities=12%  Similarity=0.172  Sum_probs=40.1

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~   99 (159)
                      .+.+.+.||+|.-..... ...+.-+|.+|++... +..++..+...++.+.+.....+.++ .+|.|+.+.
T Consensus       115 ~yD~ViID~~~~~~~~~~-~~~l~aAD~vlip~~~-~~~sl~~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~  184 (268)
T TIGR01281       115 DYDVILFDVLGDVVCGGF-ATPLQYADYALVVAAN-DFDALFAANRIAASVQEKAKNYDVRLAGIIGNRSDA  184 (268)
T ss_pred             cCCEEEEecCCccccCcc-ccchhhcCEEEEEecC-chhHHHHHHHHHHHHHHHhhcCCCceEEEEEeCCCh
Confidence            456677999875321111 1235678999998754 45566666555554444322244554 467899874

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=87.42  E-value=6.7  Score=26.22  Aligned_cols=87  Identities=13%  Similarity=0.172  Sum_probs=52.2

Q ss_pred             eEEEEEEeCCCcccchHHHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCc---
Q psy11289         29 PARLDILDTAGQEEFSAMREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQ---  102 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~---  102 (159)
                      .+.+-+.|+|+...  .......  ..+|.++++...+ +.+...+.+++..+.+.    +.+ .-++.|+.+....   
T Consensus        67 ~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~-~~s~~~~~~~~~~l~~~----~~~~~gvv~N~~~~~~~~~~  139 (169)
T cd02037          67 ELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQ-EVALDDVRKAIDMFKKV----NIPILGVVENMSYFVCPHCG  139 (169)
T ss_pred             CCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCc-hhhHHHHHHHHHHHHhc----CCCeEEEEEcCCcccCCCCC
Confidence            34566799998642  2122222  5789999998765 56677777777777664    334 3467888874211   


Q ss_pred             --CCC-CHHHHHHHHHHcCCcEE
Q psy11289        103 --RQV-SSMDAQNVARQLRIPYI  122 (159)
Q Consensus       103 --~~~-~~~~~~~~~~~~~~~~~  122 (159)
                        ... .......+++.++.+++
T Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~  162 (169)
T cd02037         140 KKIYIFGKGGGEKLAEELGVPLL  162 (169)
T ss_pred             CcccccCCccHHHHHHHcCCCEE
Confidence              111 12355677777776643

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>KOG0463|consensus

Probab=87.31  E-value=7.1  Score=30.35  Aligned_cols=95  Identities=16%  Similarity=0.151  Sum_probs=49.4

Q ss_pred             EEEEeCCCcccchHHHH--HHhhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC
Q psy11289         32 LDILDTAGQEEFSAMRE--QYMRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS  106 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~--~~~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~  106 (159)
                      +.|+|.+|+++|-...-  ..-.-.|-..++..++-.   .+-+++.    ..+    ...+|+.+|.+|+|+.....+ 
T Consensus       221 iTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIiGmTKEHLg----LAL----aL~VPVfvVVTKIDMCPANiL-  291 (641)
T KOG0463|consen  221 ITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGIIGMTKEHLG----LAL----ALHVPVFVVVTKIDMCPANIL-  291 (641)
T ss_pred             EEEEeccchhhhhheeeeccccCCCCceEEEecccccceeccHHhhh----hhh----hhcCcEEEEEEeeccCcHHHH-
Confidence            56699999999854211  001223445554443321   1122221    111    146788888888887432111 


Q ss_pred             HHHH-----------------------------HHHHHHcCCcEEEeCCCCCCCHHHH
Q psy11289        107 SMDA-----------------------------QNVARQLRIPYIECSAKVRINVDQA  135 (159)
Q Consensus       107 ~~~~-----------------------------~~~~~~~~~~~~~~sa~~~~~i~~~  135 (159)
                      .+..                             .+|..+.=||+|.+|-.+|.|+.-+
T Consensus       292 qEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LL  349 (641)
T KOG0463|consen  292 QETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLL  349 (641)
T ss_pred             HHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHH
Confidence            1111                             1222222367899999999998654

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=87.25  E-value=8.8  Score=27.42  Aligned_cols=67  Identities=13%  Similarity=0.207  Sum_probs=43.3

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc--CCCCCcEEEEEeCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK--DRDEFPMLMVGNKAD   98 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~~p~ivv~nK~D   98 (159)
                      .+.+.|.|+||...  ......+..+|.+|+...++ +.++..+.+++..+....  ...+.|..++.|.++
T Consensus        83 ~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps-~~d~~~~~~~~~~v~~~~~~~~~~l~~~iv~~~~~  151 (231)
T PRK13849         83 GFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLT-PLDIDEALSTYRYVIELLLSENLAIPTAILRQRVP  151 (231)
T ss_pred             CCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCc-HHHHHHHHHHHHHHHHHHHHhCCCCCeEEEEEecc
Confidence            45677799999764  34455667889999887663 444555555544443321  124678788999886

>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=85.37  E-value=2.3  Score=28.66  Aligned_cols=30  Identities=20%  Similarity=0.115  Sum_probs=17.1

Q ss_pred             HHHHHHHcCCcEEEeCCCCCCCHHHHHHHH
Q psy11289        110 AQNVARQLRIPYIECSAKVRINVDQAFHEL  139 (159)
Q Consensus       110 ~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l  139 (159)
                      ..+..+++|++++.+|+.++.|++++.+.+
T Consensus         4 ~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l   33 (161)
T PF03193_consen    4 LLEQYEKLGYPVFFISAKTGEGIEELKELL   33 (161)
T ss_dssp             HHHHHHHTTSEEEE-BTTTTTTHHHHHHHH
T ss_pred             HHHHHHHcCCcEEEEeCCCCcCHHHHHHHh
Confidence            344455566666666666666666665544

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.

>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase

Probab=85.30  E-value=12  Score=27.01  Aligned_cols=67  Identities=12%  Similarity=0.106  Sum_probs=37.7

Q ss_pred             eEEEEEEeCCCcccchHHH-HHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeC
Q psy11289         29 PARLDILDTAGQEEFSAMR-EQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNK   96 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~-~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK   96 (159)
                      .+.+.|+|++|......+. .....-+|.++++..+ ++.++..+.+.++.+.......+.++. ++.|+
T Consensus       116 ~yD~viID~~g~~~~~~~~~~~~~~aaD~vlip~~p-~~~sl~~~~~l~~~i~~~~~~~~~~l~gVv~n~  184 (270)
T cd02040         116 DLDFVIYDVLGDVVCGGFAMPIREGKAQEIYIVTSG-EMMALYAANNICKGILKYAKSGGVRLGGLICNS  184 (270)
T ss_pred             CCCEEEEecccCcccCCcccccccccccEEEEEecC-chHHHHHHHHHHHHHHHhCccCCCceEEEEEec
Confidence            3556779998764322211 1122358999998877 455666666665555554332345554 44454

Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=84.23  E-value=21  Score=29.20  Aligned_cols=86  Identities=21%  Similarity=0.205  Sum_probs=48.3

Q ss_pred             EEEEEEeCCCcccchHH-HHHH--h--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         30 ARLDILDTAGQEEFSAM-REQY--M--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~-~~~~--~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      +.+.|+||+|....... ...+  +  ......++|++.+.  +..++...+..+...     .+.-+|.||.|...   
T Consensus       429 ~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAts--s~~Dl~eii~~f~~~-----~~~gvILTKlDEt~---  498 (559)
T PRK12727        429 YKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANA--HFSDLDEVVRRFAHA-----KPQGVVLTKLDETG---  498 (559)
T ss_pred             CCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCC--ChhHHHHHHHHHHhh-----CCeEEEEecCcCcc---
Confidence            56777999997543321 1110  1  11234566677654  233443334443321     35678899999532   


Q ss_pred             CCHHHHHHHHHHcCCcEEEeCC
Q psy11289        105 VSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                       ..-.........++++..++.
T Consensus       499 -~lG~aLsv~~~~~LPI~yvt~  519 (559)
T PRK12727        499 -RFGSALSVVVDHQMPITWVTD  519 (559)
T ss_pred             -chhHHHHHHHHhCCCEEEEeC
Confidence             234566777778888666654

>cd03114 ArgK-like The function of this protein family is unkown

Probab=84.18  E-value=6.9  Score=25.79  Aligned_cols=58  Identities=21%  Similarity=0.248  Sum_probs=36.4

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      .+.+-|.||+|....   ...++..||-++++..++-.+.+.-++   ..+.      ...-+++.||+|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k---~~~~------~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIK---AGIM------EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhh---hhHh------hhcCEEEEeCCC
Confidence            456777999997532   235788899999988776333332221   1121      223478899987

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.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=83.94  E-value=13  Score=28.16  Aligned_cols=89  Identities=18%  Similarity=0.152  Sum_probs=52.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhh--------cCCEEEEEEECCChhhHHH-HH-HHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMR--------SGEGFLLVFSVTDRNSFEE-IY-KFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~--------~~~~ii~v~d~~~~~s~~~-~~-~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +...++.+.|...-.+....+..        ..|+++-|+|+.+-..... .. ....++..       --+++.||.|+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~-------AD~ivlNK~Dl  157 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAF-------ADVIVLNKTDL  157 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHh-------CcEEEEecccC
Confidence            34456888888766555554433        3488999999877433222 22 22223322       23889999999


Q ss_pred             CCcCCCCHHHHHHHHHHcC--CcEEEeCCC
Q psy11289        100 DHQRQVSSMDAQNVARQLR--IPYIECSAK  127 (159)
Q Consensus       100 ~~~~~~~~~~~~~~~~~~~--~~~~~~sa~  127 (159)
                      .+...  .+......++++  .+++++|..
T Consensus       158 v~~~~--l~~l~~~l~~lnp~A~i~~~~~~  185 (323)
T COG0523         158 VDAEE--LEALEARLRKLNPRARIIETSYG  185 (323)
T ss_pred             CCHHH--HHHHHHHHHHhCCCCeEEEcccc
Confidence            86543  333344444443  668888773

>PRK10867 signal recognition particle protein; Provisional

Probab=83.40  E-value=17  Score=28.66  Aligned_cols=86  Identities=15%  Similarity=0.098  Sum_probs=47.3

Q ss_pred             EEEEEEeCCCcccchH-HHH---HH--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         30 ARLDILDTAGQEEFSA-MRE---QY--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-~~~---~~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      +.+.|.||+|...... +..   .+  .-..+.+++|.|.....   ++......+.+.   .+ ..-+|.||.|.....
T Consensus       184 ~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq---~av~~a~~F~~~---~~-i~giIlTKlD~~~rg  256 (433)
T PRK10867        184 YDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQ---DAVNTAKAFNEA---LG-LTGVILTKLDGDARG  256 (433)
T ss_pred             CCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHH---HHHHHHHHHHhh---CC-CCEEEEeCccCcccc
Confidence            4566799999754322 111   11  12568889999986542   222222333321   11 234567999953322


Q ss_pred             CCCHHHHHHHHHHcCCcEEEeCC
Q psy11289        104 QVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                      .    .+...+...++|+..++.
T Consensus       257 G----~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        257 G----AALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             c----HHHHHHHHHCcCEEEEeC
Confidence            2    356677777888665544

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=83.14  E-value=7.1  Score=28.84  Aligned_cols=99  Identities=14%  Similarity=0.176  Sum_probs=46.8

Q ss_pred             EEEEECCeeEEEEEEeCCCcccc-------hHH-------HHHHh-------------hcCCEEEEEEECCChhhHHHHH
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEF-------SAM-------REQYM-------------RSGEGFLLVFSVTDRNSFEEIY   73 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~-------~~~-------~~~~~-------------~~~~~ii~v~d~~~~~s~~~~~   73 (159)
                      ..+.-++.++.+.++||||....       ..+       ...++             ...|+||++.+++.. .+..+.
T Consensus        54 ~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~-~L~~~D  132 (281)
T PF00735_consen   54 VELEENGVKLNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGH-GLKPLD  132 (281)
T ss_dssp             EEEEETCEEEEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSS-SS-HHH
T ss_pred             EEeccCCcceEEEEEeCCCccccccchhhhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCc-cchHHH
Confidence            33444788899999999994321       110       11111             135999999998642 111111


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcCCcEEEe
Q psy11289         74 KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLRIPYIEC  124 (159)
Q Consensus        74 ~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~  124 (159)
                        +..+.+..  ..+++|=|..|+|.....++.  .....+-.+..+++++..
T Consensus       133 --i~~mk~Ls--~~vNvIPvIaKaD~lt~~el~~~k~~i~~~l~~~~I~~f~f  181 (281)
T PF00735_consen  133 --IEFMKRLS--KRVNVIPVIAKADTLTPEELQAFKQRIREDLEENNIKIFDF  181 (281)
T ss_dssp             --HHHHHHHT--TTSEEEEEESTGGGS-HHHHHHHHHHHHHHHHHTT--S---
T ss_pred             --HHHHHHhc--ccccEEeEEecccccCHHHHHHHHHHHHHHHHHcCceeecc
Confidence              12333332  446788899999974322211  111223334556765543

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.

>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=83.08  E-value=11  Score=25.13  Aligned_cols=82  Identities=16%  Similarity=0.073  Sum_probs=44.8

Q ss_pred             EEEEEeCCCcccchH----HHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         31 RLDILDTAGQEEFSA----MREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~----~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      .+.+.|++|......    ....+.  ...+.+++|++.....+.   ..+...+.+..   + ..-++.||.|....  
T Consensus        84 d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~---~~~~~~~~~~~---~-~~~viltk~D~~~~--  154 (173)
T cd03115          84 DVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDA---VNQAKAFNEAL---G-ITGVILTKLDGDAR--  154 (173)
T ss_pred             CEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHH---HHHHHHHHhhC---C-CCEEEEECCcCCCC--
Confidence            345599999853321    111222  248999999998654322   22333333322   2 24566799996432  


Q ss_pred             CCHHHHHHHHHHcCCcEEE
Q psy11289        105 VSSMDAQNVARQLRIPYIE  123 (159)
Q Consensus       105 ~~~~~~~~~~~~~~~~~~~  123 (159)
                        .....+.+...++|+..
T Consensus       155 --~g~~~~~~~~~~~p~~~  171 (173)
T cd03115         155 --GGAALSIRAVTGKPIKF  171 (173)
T ss_pred             --cchhhhhHHHHCcCeEe
Confidence              22334466677777543

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.

>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function

Probab=81.75  E-value=9.2  Score=23.14  Aligned_cols=18  Identities=22%  Similarity=0.366  Sum_probs=9.8

Q ss_pred             HHHHHHHHHcCCcEEEeC
Q psy11289        108 MDAQNVARQLRIPYIECS  125 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~~~s  125 (159)
                      ..+++.|++.++|++.+.
T Consensus        65 ~~vk~~akk~~ip~~~~~   82 (97)
T PF10087_consen   65 WKVKKAAKKYGIPIIYSR   82 (97)
T ss_pred             HHHHHHHHHcCCcEEEEC
Confidence            345555555555555553

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=81.39  E-value=19  Score=26.61  Aligned_cols=115  Identities=9%  Similarity=0.118  Sum_probs=60.0

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCc------
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQ------  102 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~------  102 (159)
                      +.+.+.||+|.-....+ ...+..||.+|++.++ ++.++..+...++.+.......+.+. -++.|+.+....      
T Consensus       116 yD~IiIDt~~~l~~~a~-~aal~~AD~viIp~~p-~~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~~~~~~~~~~~~  193 (290)
T CHL00072        116 YDIILFDVLGDVVCGGF-AAPLNYADYCIIITDN-GFDALFAANRIAASVREKARTHPLRLAGLVGNRTSKRDLIDKYVE  193 (290)
T ss_pred             CCEEEEecCCcceechh-hhhhhcCCEEEEEecC-CHHHHHHHHHHHHHHHHHhccCCCceEEEEEeCCCchhHHHHHHH
Confidence            55677999876322211 1234678999998866 45566666555554444322233433 377898873110      


Q ss_pred             -------CCCCHHHHHHHHHHcCCcEEEeCCCCCCC---HHHHHHHHHHHHHhcc
Q psy11289        103 -------RQVSSMDAQNVARQLRIPYIECSAKVRIN---VDQAFHELVRIVLLHT  147 (159)
Q Consensus       103 -------~~~~~~~~~~~~~~~~~~~~~~sa~~~~~---i~~~~~~l~~~~~~~~  147 (159)
                             ..++......-+...|.++++.+.. ..+   ....+..+.+.+..+.
T Consensus       194 ~~~~~vl~~Ip~~~~v~~A~~~g~pv~~~~p~-s~~~~~~a~~y~~La~ell~~~  247 (290)
T CHL00072        194 ACPMPVLEVLPLIEDIRVSRVKGKTLFEMVES-EPSLNYVCDYYLNIADQLLSQP  247 (290)
T ss_pred             HcCCceEEECCCChHHHHHHhCCCceEEeCCC-CcchhHHHHHHHHHHHHHHhCC
Confidence                   0111122222233344555555443 222   4566777777776554

>KOG2485|consensus

Probab=80.91  E-value=8.3  Score=29.02  Aligned_cols=103  Identities=14%  Similarity=0.009  Sum_probs=53.7

Q ss_pred             EeCCCccc-chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHH
Q psy11289         35 LDTAGQEE-FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNV  113 (159)
Q Consensus        35 ~D~~g~~~-~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~  113 (159)
                      -+.||+-- --...+..+...|.+|=+=|+.=|=|-+.  .   .+....  +.+|=|+|.||+|+.+.... ..-++.+
T Consensus        27 ~wfpgHmakalr~i~~~l~~~D~iiEvrDaRiPLssrn--~---~~~~~~--~~k~riiVlNK~DLad~~~~-k~~iq~~   98 (335)
T KOG2485|consen   27 RWFPGHMAKALRAIQNRLPLVDCIIEVRDARIPLSSRN--E---LFQDFL--PPKPRIIVLNKMDLADPKEQ-KKIIQYL   98 (335)
T ss_pred             ccCchHHHHHHHHHHhhcccccEEEEeeccccCCcccc--H---HHHHhc--CCCceEEEEecccccCchhh-hHHHHHH
Confidence            34555532 12234555778899999988876533222  1   122222  36788999999999874332 3344455


Q ss_pred             HHHcCCcEEEeCCC--CCC---CHHHHHHHHHHHHHh
Q psy11289        114 ARQLRIPYIECSAK--VRI---NVDQAFHELVRIVLL  145 (159)
Q Consensus       114 ~~~~~~~~~~~sa~--~~~---~i~~~~~~l~~~~~~  145 (159)
                      +.+....++..++.  ...   ++..++.++...+.+
T Consensus        99 ~~~~~~~~~~~~c~~~~~~~v~~l~~il~~~~~~l~r  135 (335)
T KOG2485|consen   99 EWQNLESYIKLDCNKDCNKQVSPLLKILTILSEELVR  135 (335)
T ss_pred             HhhcccchhhhhhhhhhhhccccHHHHHHHHHHHHHH
Confidence            55533333333333  222   344444444444433

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=80.86  E-value=18  Score=25.97  Aligned_cols=102  Identities=10%  Similarity=0.183  Sum_probs=60.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhH--HHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF--EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      +.+-|.|+.|....  .....+..+|.+|+=.-.+..+.-  ....+|+.+..+.. ..++|.-|+.++.+-.... ...
T Consensus        84 ~d~VlvDleG~as~--~~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~-~~~ip~~Vl~Tr~~~~~~~-~~~  159 (231)
T PF07015_consen   84 FDFVLVDLEGGASE--LNDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAE-RRDIPAAVLFTRVPAARLT-RAQ  159 (231)
T ss_pred             CCEEEEeCCCCCch--hHHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhh-CCCCCeeEEEecCCcchhh-HHH
Confidence            45677999887532  344556789999986666543332  22335666665433 3678999999998732111 111


Q ss_pred             HHHHHHHHHcCCcEEEeCCCCCCCHHHHHH
Q psy11289        108 MDAQNVARQLRIPYIECSAKVRINVDQAFH  137 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~  137 (159)
                      ....++.+  ++|++.+.-....-..++|.
T Consensus       160 ~~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  160 RIISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHHh--cCCccccccccHHHHHHHHH
Confidence            12223332  58888888777665555555

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	159
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		5e-68
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		7e-53
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		2e-45
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		4e-45
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		8e-45
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		1e-44
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-43
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		3e-43
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-43
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		4e-43
6q21_A	171	Molecular Switch For Signal Transduction: Structura		4e-43
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		4e-43
1wq1_R	166	Ras-Rasgap Complex Length = 166		5e-43
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-43
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		5e-43
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		5e-43
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		5e-43
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		6e-43
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		6e-43
4q21_A	189	Molecular Switch For Signal Transduction: Structura		6e-43
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		8e-43
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		8e-43
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-42
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-42
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		1e-42
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-42
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		1e-42
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		1e-42
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		1e-42
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-42
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-42
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-42
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		2e-42
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-42
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-42
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		2e-42
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-42
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-42
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		2e-42
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		3e-42
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		3e-42
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		3e-42
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-42
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-42
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		4e-42
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		4e-42
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		5e-42
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		5e-42
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		2e-41
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		3e-39
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		1e-37
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		1e-37
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		2e-37
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		2e-37
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		1e-36
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		2e-36
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		2e-36
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		6e-36
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		7e-36
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		7e-36
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		1e-35
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		1e-29
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-29
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		1e-22
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		4e-22
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		2e-20
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		2e-20
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-20
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-19
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		1e-18
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		2e-18
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		5e-18
1vg1_A	185	Gdp-bound Rab7 Length = 185		5e-18
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		1e-17
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-17
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-17
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		4e-17
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		4e-17
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		6e-17
2efc_B	181	Ara7-GdpATVPS9A Length = 181		8e-17
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-17
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		1e-16
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-16
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-16
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-16
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-16
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		2e-16
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-16
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		2e-16
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		2e-16
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		3e-16
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		3e-16
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		3e-16
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		3e-16
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		4e-16
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		4e-16
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		4e-16
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		4e-16
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		5e-16
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		6e-16
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		6e-16
4fmc_B	171	Espg-Rab1 Complex Length = 171		6e-16
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		7e-16
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		7e-16
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		7e-16
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		7e-16
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		8e-16
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		8e-16
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		8e-16
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		8e-16
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		9e-16
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		9e-16
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-15
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		1e-15
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		1e-15
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-15
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-15
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		5e-15
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		5e-15
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		7e-15
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		1e-14
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-14
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		1e-14
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		1e-14
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-14
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		1e-14
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		1e-14
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		2e-14
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-14
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-14
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-14
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		3e-14
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-14
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		4e-14
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		4e-14
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		6e-14
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		6e-14
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		9e-14
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		9e-14
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		9e-14
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		9e-14
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		1e-13
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		2e-13
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		2e-13
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-13
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		3e-13
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-13
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		3e-13
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-13
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		3e-13
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		3e-13
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		3e-13
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		3e-13
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		3e-13
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		4e-13
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		4e-13
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		5e-13
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		6e-13
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		6e-13
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		6e-13
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		7e-13
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		8e-13
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-12
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-12
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		1e-12
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-12
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		2e-12
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-12
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		2e-12
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-12
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		2e-12
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		2e-12
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		2e-12
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		2e-12
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		2e-12
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-12
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-12
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		2e-12
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		2e-12
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		2e-12
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		2e-12
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		2e-12
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		2e-12
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		2e-12
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		3e-12
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		3e-12
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		3e-12
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		3e-12
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-12
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		4e-12
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		4e-12
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		5e-12
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		7e-12
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		8e-12
2kb0_A	178	Cdc42(T35a) Length = 178		8e-12
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		8e-12
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		8e-12
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		9e-12
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		9e-12
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		9e-12
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		1e-11
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		1e-11
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		1e-11
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		1e-11
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		2e-11
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		2e-11
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-11
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-11
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-11
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		3e-11
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		3e-11
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		3e-11
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		3e-11
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		3e-11
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		3e-11
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		3e-11
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		3e-11
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		3e-11
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		3e-11
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		4e-11
1byu_A	216	Canine Gdp-Ran Length = 216		4e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		4e-11
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		4e-11
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		4e-11
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		4e-11
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		5e-11
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		8e-11
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		1e-10
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-10
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		2e-10
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-10
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		2e-10
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-10
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		2e-10
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		2e-10
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		2e-10
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-10
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		2e-10
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		2e-10
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		2e-10
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		2e-10
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-10
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		2e-10
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		3e-10
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		3e-10
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		3e-10
1mh1_A	186	Small G-Protein Length = 186		3e-10
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		4e-10
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		4e-10
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-09
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		2e-09
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-09
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		3e-09
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		7e-09
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		7e-09
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		1e-08
4fmc_F	117	Espg-Rab1 Complex Length = 117		1e-08
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		2e-08
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		2e-08
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		4e-08
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		4e-08
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		4e-08
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		4e-08
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		4e-08
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		4e-08
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		4e-08
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		5e-08
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		5e-08
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		5e-08
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		5e-08
1s1c_A	183	Crystal Structure Of The Complex Between The Human		5e-08
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		5e-08
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		5e-08
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		5e-08
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		5e-08
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		6e-08
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		1e-07
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		2e-07
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-07
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		3e-07
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		3e-07
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		3e-07
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		4e-07
2iwr_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		7e-06
2bmj_A	178	Gtpase Like Domain Of Centaurin Gamma 1 (Human) Len		7e-06
3ihw_A	184	Crystal Structure Of The Ras-Like Domain Of Centg3		1e-05
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		5e-05
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		5e-05
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		6e-05
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		4e-04

>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 =  252 bits (644), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 115/141 (81%), Positives = 130/141 (92%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct: 26  IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 85
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct: 86  VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 145
Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK+R+NVDQAFHELVR++
Sbjct: 146 EASAKIRMNVDQAFHELVRVI 166

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score =  202 bits (514), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 95/147 (64%), Positives = 115/147 (78%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 30  IQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFA 89
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL+ QRQV   +A        + Y 
Sbjct: 90  INDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF 149
Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK+R+NVD+AF +LVR V  + +Q
Sbjct: 150 EASAKLRLNVDEAFEQLVRAVRKYQEQ 176

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score =  177 bits (449), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 85/138 (61%), Positives = 108/138 (78%), Gaps = 1/138 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DYDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+SVTD+
Sbjct: 38  FVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 97
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYIE SA
Sbjct: 98  ASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSA 157
Query: 127 K-VRINVDQAFHELVRIV 143
           K   +NVD+ FH+LVR++
Sbjct: 158 KDPPLNVDKTFHDLVRVI 175

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score =  176 bits (447), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 85/138 (61%), Positives = 108/138 (78%), Gaps = 1/138 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DYDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+SVTD+
Sbjct: 43  FVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 102
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYIE SA
Sbjct: 103 ASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSA 162
Query: 127 K-VRINVDQAFHELVRIV 143
           K   +NVD+ FH+LVR++
Sbjct: 163 KDPPLNVDKTFHDLVRVI 180

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score =  175 bits (444), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 84/138 (60%), Positives = 108/138 (78%), Gaps = 1/138 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV +YDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+SVTD+
Sbjct: 43  FVPEYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 102
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYIE SA
Sbjct: 103 ASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSA 162
Query: 127 K-VRINVDQAFHELVRIV 143
           K   +NVD+ FH+LVR++
Sbjct: 163 KDPPLNVDKTFHDLVRVI 180

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score =  174 bits (442), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 84/138 (60%), Positives = 108/138 (78%), Gaps = 1/138 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV +YDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+SVTD+
Sbjct: 43  FVDEYDPTIEDSYRKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 102
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYIE SA
Sbjct: 103 ASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSA 162
Query: 127 K-VRINVDQAFHELVRIV 143
           K   +NVD+ FH+LVR++
Sbjct: 163 KDPPLNVDKTFHDLVRVI 180

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score =  170 bits (430), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 31  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 90
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 91  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 149
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 150 ETSAKTRQGVEDAFYTLVREIRQH 173

>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 =  169 bits (429), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  169 bits (429), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  169 bits (429), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  169 bits (429), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score =  169 bits (429), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score =  169 bits (429), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score =  169 bits (429), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score =  169 bits (428), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  169 bits (428), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AGRTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score =  169 bits (428), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 29  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 88
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 89  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 147
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 148 ETSAKTRQGVEDAFYTLVREIRQH 171

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score =  169 bits (428), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 29  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 88
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 89  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 147
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 148 ETSAKTRQGVEDAFYTLVREIRQH 171

>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 =  169 bits (428), Expect = 6e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  169 bits (427), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV  YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDKYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score =  169 bits (427), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV  YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVEKYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score =  168 bits (426), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGEICLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  168 bits (426), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/139 (60%), Positives = 105/139 (75%), Gaps = 1/139 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK R  V+ AF+ LVR
Sbjct: 143 ETSAKTRQGVEDAFYTLVR 161

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDT GQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTGGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR++YMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDEYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGN+ DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDP+IEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG+EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGKEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score =  168 bits (425), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDP+IEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 30  IQNHFVDEYDPSIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 89
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 90  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 148
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 149 ETSAKTRQGVEDAFYTLVREIRQH 172

>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 =  168 bits (425), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIE+SY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEESYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score =  167 bits (424), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV ++DPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEFDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  167 bits (424), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 85/144 (59%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEASAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  167 bits (424), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDT GQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTTGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score =  167 bits (424), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 83/147 (56%), Positives = 109/147 (74%), Gaps = 1/147 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 25  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 84
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK+DL   R V +  AQ++AR   IP+I
Sbjct: 85  INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFI 143
Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R  VD AF+ LVR +  H ++
Sbjct: 144 ETSAKTRQGVDDAFYTLVREIRKHKEK 170

>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 =  167 bits (423), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score =  167 bits (423), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 83/147 (56%), Positives = 109/147 (74%), Gaps = 1/147 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 25  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 84
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK+DL   R V +  AQ++AR   IP+I
Sbjct: 85  INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFI 143
Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R  VD AF+ LVR +  H ++
Sbjct: 144 ETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score =  167 bits (423), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 83/147 (56%), Positives = 109/147 (74%), Gaps = 1/147 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 25  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 84
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK+DL   R V +  AQ++AR   IP+I
Sbjct: 85  INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLP-SRTVDTKQAQDLARSYGIPFI 143
Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R  VD AF+ LVR +  H ++
Sbjct: 144 ETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score =  167 bits (423), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETXLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score =  167 bits (422), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTA QEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score =  167 bits (422), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score =  167 bits (422), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTA QEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  167 bits (422), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 107/144 (74%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV + DPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK+DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 =  166 bits (421), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score =  166 bits (421), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGVEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score =  166 bits (421), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 29  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFA 88
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 89  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 147
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 148 ETSAKTRQGVEDAFYTLVREIRQH 171

>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 =  166 bits (420), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 83/144 (57%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 25  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 84
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK DL   R V +  AQ++AR   IP+I
Sbjct: 85  INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFI 143
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  VD AF+ LVR +  H
Sbjct: 144 ETSAKTRQGVDDAFYTLVREIRKH 167

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score =  166 bits (420), Expect = 5e-42,   Method: Compositional matrix adjust.
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGIEEYSAMRDQYMRTGEGFLCVFA 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYI 142
Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score =  164 bits (416), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 82/147 (55%), Positives = 107/147 (72%), Gaps = 1/147 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAG EE+SAMR+QYMR+GEGFL VF+
Sbjct: 42  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFA 101
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK DL   R V +  AQ++AR   IP+I
Sbjct: 102 INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFI 160
Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R  VD AF+ LVR +  H ++
Sbjct: 161 ETSAKTRQGVDDAFYTLVREIRKHKEK 187

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score =  157 bits (397), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 79/139 (56%), Positives = 100/139 (71%), Gaps = 1/139 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 42  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 101
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SF +I  +  QI RVKD D+ PM++VGNK DL   R V +  A  +A+   IP+I
Sbjct: 102 INNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL-PTRTVDTKQAHELAKSYGIPFI 160
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK R  V+ AF+ LVR
Sbjct: 161 ETSAKTRQGVEDAFYTLVR 179

>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 =  151 bits (382), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 72/135 (53%), Positives = 97/135 (71%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS+T+ 
Sbjct: 43  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM 102
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+E SA
Sbjct: 103 ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSA 162
Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +L+R
Sbjct: 163 KTRANVDKVFFDLMR 177

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  151 bits (382), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 72/135 (53%), Positives = 97/135 (71%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS+T+ 
Sbjct: 31  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM 90
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+E SA
Sbjct: 91  ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSA 150
Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +L+R
Sbjct: 151 KTRANVDKVFFDLMR 165

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score =  151 bits (381), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 72/135 (53%), Positives = 97/135 (71%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS+T+ 
Sbjct: 39  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM 98
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+E SA
Sbjct: 99  ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSA 158
Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +L+R
Sbjct: 159 KTRANVDKVFFDLMR 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 =  150 bits (380), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 72/135 (53%), Positives = 97/135 (71%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS+T+ 
Sbjct: 29  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEM 88
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+E SA
Sbjct: 89  ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSA 148
Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +L+R
Sbjct: 149 KTRANVDKVFFDLMR 163

>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 =  148 bits (374), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 71/135 (52%), Positives = 96/135 (71%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAG E+++A+R+ Y RSGEGFL VFS+T+ 
Sbjct: 31  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLCVFSITEM 90
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+E SA
Sbjct: 91  ESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSA 150
Query: 127 KVRINVDQAFHELVR 141
           K R NVD+ F +L+R
Sbjct: 151 KTRANVDKVFFDLMR 165

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score =  147 bits (372), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 70/140 (50%), Positives = 100/140 (71%), Gaps = 1/140 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 24  VQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           +T +++F ++     QILRVKD D+ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNNCAF 143
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK +INV++ F++LVR
Sbjct: 144 LESSAKSKINVNEIFYDLVR 163

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score =  147 bits (372), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 70/140 (50%), Positives = 100/140 (71%), Gaps = 1/140 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 26  VQGIFVEKYDPTIEDSYRKQVEVDAQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 85
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           +T +++F ++     QILRVKD D+ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 86  ITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVVGKEQGQNLARQWNNCAF 145
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK +INV++ F++LVR
Sbjct: 146 LESSAKSKINVNEIFYDLVR 165

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score =  146 bits (368), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 70/136 (51%), Positives = 99/136 (72%), Gaps = 1/136 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAG E+++A+R+ Y RSGEGFLLVFS+T+ 
Sbjct: 32  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEH 91
Query: 67  NSFEEIYKFHRQILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            SF    +F  QILRVK + D+ P+L+VGNK+DL+ +RQV   +A++ A +  + Y+E S
Sbjct: 92  ESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETS 151
Query: 126 AKVRINVDQAFHELVR 141
           AK R NVD+ F +L+R
Sbjct: 152 AKTRANVDKVFFDLMR 167

>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 =  145 bits (367), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 70/136 (51%), Positives = 99/136 (72%), Gaps = 1/136 (0%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           FV DY+PT  DSY K+ V+D    ++DILDTAG E+++A+R+ Y RSGEGFLLVFS+T+ 
Sbjct: 28  FVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGLEDYAAIRDNYFRSGEGFLLVFSITEH 87
Query: 67  NSFEEIYKFHRQILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            SF    +F  QILRVK + D+ P+L+VGNK+DL+ +RQV   +A++ A +  + Y+E S
Sbjct: 88  ESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQVPVEEARSKAEEWGVQYVETS 147
Query: 126 AKVRINVDQAFHELVR 141
           AK R NVD+ F +L+R
Sbjct: 148 AKTRANVDKVFFDLMR 163

>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 =  145 bits (367), Expect = 7e-36,   Method: Compositional matrix adjust.
 Identities = 69/140 (49%), Positives = 101/140 (72%), Gaps = 1/140 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV +YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 24  VQGIFVDEYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           +T +++F ++     QILRVKD ++ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF 143
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK +INV++ F++LVR
Sbjct: 144 LESSAKSKINVNEIFYDLVR 163

>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 =  145 bits (366), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 69/140 (49%), Positives = 100/140 (71%), Gaps = 1/140 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 24  VQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
           +T +++F ++     QILRVKD ++ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF 143
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK +INV++ F++LVR
Sbjct: 144 LESSAKSKINVNEIFYDLVR 163

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score =  125 bits (313), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 61/139 (43%), Positives = 100/139 (71%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+  YDPTIED Y K+  +D  P+ L+ILDTAG E+F++MR+ Y+++G+GF+LV+S
Sbjct: 24  VTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYS 83
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + ++ SF++I     QI+RVK  ++ P+++VGNK DL+ +R+VSS + + +A +   P++
Sbjct: 84  LVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFM 143
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK +  VD+ F E+VR
Sbjct: 144 ETSAKSKTMVDELFAEIVR 162

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 62/138 (44%), Positives = 89/138 (64%), Gaps = 2/138 (1%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F+ +YDPT+E +Y  Q  IDD    ++ILDTAGQE+ +  RE +MR GEGF+LV+ +TDR
Sbjct: 53  FIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDR 111
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFEE+      +  +K      +++VGNKADLDH RQVS+ + + +A +L   + ECSA
Sbjct: 112 GSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSA 171
Query: 127 -KVRINVDQAFHELVRIV 143
                N+ + F+EL R V
Sbjct: 172 CTGEGNITEIFYELCREV 189

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score =  102 bits (253), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 51/141 (36%), Positives = 80/141 (56%), Gaps = 1/141 (0%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  F   Y PT+ED+Y +    D     L I DT G  +F AM+   +  G  F+LV+S
Sbjct: 24  VKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYS 83
Query: 63  VTDRNSFEEIYKFHRQILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           +T R S EE+   + QI  +K D +  P+++VGNK D    R+V S +A+ +AR  +  +
Sbjct: 84  ITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAF 143
Query: 122 IECSAKVRINVDQAFHELVRI 142
           +E SAK+  NV + F EL+ +
Sbjct: 144 METSAKLNHNVKELFQELLNL 164

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score =  100 bits (248), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 52/141 (36%), Positives = 85/141 (60%), Gaps = 2/141 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  F   Y PTIED+Y +    D     L I DT G  +F AM+   +  G  F+LVFS
Sbjct: 29  VKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFS 88
Query: 63  VTDRNSFEEIYKFHRQILRVKDR-DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           VT + S EE+   ++ I+++K   ++ P+++VGNK D + QR+V + +AQ VA++ +  +
Sbjct: 89  VTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCD-ETQREVDTREAQAVAQEWKCAF 147
Query: 122 IECSAKVRINVDQAFHELVRI 142
           +E SAK+  NV + F EL+ +
Sbjct: 148 METSAKMNYNVKELFQELLTL 168

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 46/125 (36%), Positives = 75/125 (60%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV  YDPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 22  VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 81
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 82  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 141
Query: 123 ECSAK 127
           E SAK
Sbjct: 142 ESSAK 146

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 94.7 bits (234), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 46/125 (36%), Positives = 75/125 (60%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV  YDPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 27  VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 86
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 87  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 146
Query: 123 ECSAK 127
           E SAK
Sbjct: 147 ESSAK 151

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 94.4 bits (233), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 46/125 (36%), Positives = 75/125 (60%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV  YDPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 27  VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 86
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 87  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 146
Query: 123 ECSAK 127
           E SAK
Sbjct: 147 ESSAK 151

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 74/125 (59%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV   DPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 25  VEGQFVDSADPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 84
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 85  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 144
Query: 123 ECSAK 127
           E SAK
Sbjct: 145 ESSAK 149

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 88.6 bits (218), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 40/125 (32%), Positives = 76/125 (60%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  F   YDPT+E++Y+K   +      L ++DTAGQ+E+S +   ++    G++LV+S
Sbjct: 45  VEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYS 104
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT  +SF+ I   ++++     +   P+++VGNKADL  +R+V +++ + +A      ++
Sbjct: 105 VTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFM 164
Query: 123 ECSAK 127
           E SA+
Sbjct: 165 ESSAR 169

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 87.8 bits (216), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 48/121 (39%), Positives = 73/121 (60%), Gaps = 2/121 (1%)
Query: 34  ILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMV 93
           I DTAGQE + A+   Y R   G LLV+ +T +NSFE I K+ ++ LR        +L+V
Sbjct: 61  IWDTAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEKWLKE-LRDNADSNIVILLV 119
Query: 94  GNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           GNK+DL H R ++  DA   A++ ++ +IE SA    NV+ AFH+L+  +  + +Q K +
Sbjct: 120 GNKSDLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEI-YNVRQKKQA 178
Query: 154 T 154
           T
Sbjct: 179 T 179

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 87.0 bits (214), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 54/147 (36%), Positives = 81/147 (55%), Gaps = 6/147 (4%)
Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI  D  TK+ ++DD    + I DTAGQE F ++   + R  +  +LVF
Sbjct: 29  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF 88
Query: 62  SVTDRNSFEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-RQL 117
            VT  N+F+ +  +  + L     +D + FP +++GNK DL++ RQV++  AQ     + 
Sbjct: 89  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKN 147
Query: 118 RIPYIECSAKVRINVDQAFHELVRIVL 144
            IPY E SAK  INV+QAF  + R  L
Sbjct: 148 NIPYFETSAKEAINVEQAFQTIARNAL 174

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 86.7 bits (213), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 54/147 (36%), Positives = 81/147 (55%), Gaps = 6/147 (4%)
Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI  D  TK+ ++DD    + I DTAGQE F ++   + R  +  +LVF
Sbjct: 29  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF 88
Query: 62  SVTDRNSFEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-RQL 117
            VT  N+F+ +  +  + L     +D + FP +++GNK DL++ RQV++  AQ     + 
Sbjct: 89  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKN 147
Query: 118 RIPYIECSAKVRINVDQAFHELVRIVL 144
            IPY E SAK  INV+QAF  + R  L
Sbjct: 148 NIPYFETSAKEAINVEQAFQTIARNAL 174

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 85.1 bits (209), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 53/147 (36%), Positives = 80/147 (54%), Gaps = 6/147 (4%)
Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI  D  TK+ ++DD    + I DTAGQE F ++   + R  +  +LVF
Sbjct: 29  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF 88
Query: 62  SVTDRNSFEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-RQL 117
            VT  N+F+ +  +  + L     +D + FP +++GNK D ++ RQV++  AQ     + 
Sbjct: 89  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDFEN-RQVATKRAQAWCYSKN 147
Query: 118 RIPYIECSAKVRINVDQAFHELVRIVL 144
            IPY E SAK  INV+QAF  + R  L
Sbjct: 148 NIPYFETSAKEAINVEQAFQTIARNAL 174

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 84.7 bits (208), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/138 (36%), Positives = 74/138 (53%), Gaps = 10/138 (7%)
Query: 12  DPTIEDSYTKQCVID---------DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           D T  DSY     +D         +   +L I DTAGQE F  +   Y R   G ++V+ 
Sbjct: 31  DDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYD 90
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR+SF+ + ++ ++I R    +    L+VGNK DL  +R V+S + + +A    I +I
Sbjct: 91  VTDRDSFDNVKQWIQEIDRYA-MENVNKLLVGNKCDLVSKRVVTSDEGRELADSHGIKFI 149
Query: 123 ECSAKVRINVDQAFHELV 140
           E SAK   NV+QAFH + 
Sbjct: 150 ETSAKNAYNVEQAFHTMA 167

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 51/122 (41%), Positives = 70/122 (57%), Gaps = 5/122 (4%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL---RVKDRDEF 88
           L I DTAGQE F ++R  + R  +  LL FSV DR SFE +  + ++ +    VKD + F
Sbjct: 58  LQIWDTAGQERFKSLRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHF 117
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT 147
           P +++GNK D    RQV++ +AQ    +    PY+E SAK   NV  AF E VR VL   
Sbjct: 118 PFVVLGNKVD-KEDRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLAVE 176
Query: 148 KQ 149
           +Q
Sbjct: 177 EQ 178

>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 = 84.0 bits (206), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 48/147 (32%), Positives = 78/147 (53%), Gaps = 10/147 (6%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F TDY PT+ D+++    +D     L + DTAGQE++S +R    R  + F+L FS+  +
Sbjct: 34  FPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISK 93
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL--------DHQRQVSSMDAQNVARQL- 117
            S+E + K     LR +     P+++VG K DL        DH   ++S   + + +Q+ 
Sbjct: 94  ASYENVLKKWMPELR-RFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIG 152
Query: 118 RIPYIECSAKVRINVDQAFHELVRIVL 144
              YIECS+K + NV   F   +++VL
Sbjct: 153 AAAYIECSSKTQQNVKAVFDTAIKVVL 179

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 83.6 bits (205), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 53/147 (36%), Positives = 80/147 (54%), Gaps = 6/147 (4%)
Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI  D  TK+ ++DD    + I DTAG E F ++   + R  +  +LVF
Sbjct: 29  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLERFQSLGVAFYRGADCCVLVF 88
Query: 62  SVTDRNSFEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-RQL 117
            VT  N+F+ +  +  + L     +D + FP +++GNK DL++ RQV++  AQ     + 
Sbjct: 89  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKN 147
Query: 118 RIPYIECSAKVRINVDQAFHELVRIVL 144
            IPY E SAK  INV+QAF  + R  L
Sbjct: 148 NIPYFETSAKEAINVEQAFQTIARNAL 174

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 67/117 (57%), Gaps = 1/117 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D +  +L + DTAGQE F ++   Y R     LL++ VT++ SF+ I  +  +I     
Sbjct: 55  VDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ 114
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
            D   ++++GNK D  H+R V   D + +A++  +P++E SAK  +NVD AF  + +
Sbjct: 115 HD-VALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAK 170

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 82.8 bits (203), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 45/140 (32%), Positives = 80/140 (57%), Gaps = 2/140 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           ++  FV   + TI  ++  Q + ++D   + +I DTAGQE + ++   Y R     ++VF
Sbjct: 33  VKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVF 92
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VT++ SFE   K+ ++ L+ +      M + GNK+DL   R+V++ DAQ  A++  + +
Sbjct: 93  DVTNQASFERAKKWVQE-LQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFF 151
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK   NV + F+E+ R
Sbjct: 152 METSAKTATNVKEIFYEIAR 171

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 82.4 bits (202), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 48/134 (35%), Positives = 74/134 (55%), Gaps = 3/134 (2%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  DY  TI  D   +Q  ++D   RL + DTAGQEEF A+ + Y R  +  +LVFS TD
Sbjct: 30  FTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD 89
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE I  +  ++  V +  + P  +V NK DL     + + +A+ +A++L++ +   S
Sbjct: 90  RESFEAISSWREKV--VAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTS 147
Query: 126 AKVRINVDQAFHEL 139
            K  +NV + F  L
Sbjct: 148 VKEDLNVSEVFKYL 161

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 51/152 (33%), Positives = 79/152 (51%), Gaps = 18/152 (11%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F TDY PT+ D+++   V+D     L + DTAGQE+++ +R    R  + FLL FS+  +
Sbjct: 31  FPTDYVPTVFDNFSANVVVDGSTVNLGLWDTAGQEDYNRLRPLSYRGADVFLLAFSLISK 90
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL--------DHQRQVSSMDAQNVARQL 117
            S+E I+K  + +  +K      P+++VG K DL        DH    S   AQ    +L
Sbjct: 91  ASYENIHK--KWLPELKHYAPGIPIVLVGTKLDLRDDKQFLKDHPGAASITTAQ--GEEL 146
Query: 118 R-----IPYIECSAKVRINVDQAFHELVRIVL 144
           R     + Y+ECS+K + NV   F   +R+ L
Sbjct: 147 RKMIGAVRYLECSSKTQQNVKAVFDTAIRVAL 178

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 82.0 bits (201), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 53/141 (37%), Positives = 77/141 (54%), Gaps = 7/141 (4%)
Query: 11  YDPTI-EDSYTKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
           Y  TI  D  TK+  +D D  A + + DTAGQE F ++   + R  +  +LV+ VT+ +S
Sbjct: 37  YKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASS 96
Query: 69  FEEIYKFHRQIL---RVKDRDEFPMLMVGNKADLDHQRQ-VSSMDAQNVARQLR-IPYIE 123
           FE I  +  + L    V   + FP +++GNK D +  ++ VS   AQ +A+ L  IP   
Sbjct: 97  FENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFL 156
Query: 124 CSAKVRINVDQAFHELVRIVL 144
            SAK  INVD AF E+ R  L
Sbjct: 157 TSAKNAINVDTAFEEIARSAL 177

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/117 (41%), Positives = 68/117 (58%), Gaps = 5/117 (4%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL---RVKDRDEF 88
           + I DTAGQE F ++R  + R  +  LL FSV D  SF+ +  + ++ +    VK+ + F
Sbjct: 58  MQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESF 117
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVL 144
           P +++GNK D+  +RQVS+ +AQ   R     PY E SAK   NV  AF E VR VL
Sbjct: 118 PFVILGNKIDI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 173

>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 = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 48/117 (41%), Positives = 68/117 (58%), Gaps = 5/117 (4%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR---VKDRDEF 88
           + I DTAGQE F ++R  + R  +  LL FSV D  SF+ +  + ++ +    VK+ + F
Sbjct: 60  MQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESF 119
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVL 144
           P +++GNK D+  +RQVS+ +AQ   R     PY E SAK   NV  AF E VR VL
Sbjct: 120 PFVILGNKIDI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 175

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 45/124 (36%), Positives = 71/124 (57%), Gaps = 2/124 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAGQE F ++   + R   GFLL+F +T + SF  +  +  Q L+     E P +
Sbjct: 86  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ-LQANAYCENPDI 144
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
           +++GNKADL  QR+V+   A+ +A +  IPY E SA    NV++A   L+ +++   +QC
Sbjct: 145 VLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQC 204
Query: 151 KNST 154
              T
Sbjct: 205 VEKT 208

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 46/140 (32%), Positives = 81/140 (57%), Gaps = 5/140 (3%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+TD
Sbjct: 35  SDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHXMQVGDAYLIVYSITD 92
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE S
Sbjct: 93  RASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDCKFIETS 152
Query: 126 AKVRINVDQAFHELVRIVLL 145
           A V+ NV + F  +VR V L
Sbjct: 153 AAVQHNVKELFEGIVRQVRL 172

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 43/118 (36%), Positives = 65/118 (55%), Gaps = 1/118 (0%)
Query: 26  DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR 85
           +D   +L I DTAGQE +  +   Y R   GF+L++ +T+  SF  +  +  QI +    
Sbjct: 50  NDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQI-KTYSW 108
Query: 86  DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV 143
           D   +L+VGNK D++ +R VSS   + +A  L   + E SAK  INV Q F  LV ++
Sbjct: 109 DNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 166

>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 = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 65/112 (58%), Gaps = 1/112 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ S+  + ++ ++I R   
Sbjct: 53  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYAS 112
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
            +    L+VGNK+DL  ++ V +  A+  A  L IP++E SAK   NV+QAF
Sbjct: 113 EN-VNKLLVGNKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAF 163

>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 = 81.3 bits (199), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 65/112 (58%), Gaps = 1/112 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ S+  + ++ ++I R   
Sbjct: 53  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYAS 112
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
            +    L+VGNK+DL  ++ V +  A+  A  L IP++E SAK   NV+QAF
Sbjct: 113 EN-VNKLLVGNKSDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAF 163

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/117 (39%), Positives = 68/117 (58%), Gaps = 5/117 (4%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL---RVKDRDEF 88
           + I DTAGQE F ++R  + R  +  LL FSV D  SF+ +  + ++ +    VK+ + F
Sbjct: 62  MQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESF 121
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVL 144
           P +++GNK D+  +RQVS+ +AQ   +     PY E SAK   NV  AF E VR +L
Sbjct: 122 PFVILGNKTDI-KERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVRRIL 177

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/140 (32%), Positives = 81/140 (57%), Gaps = 5/140 (3%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+TD
Sbjct: 35  SDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITD 92
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE S
Sbjct: 93  RASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETS 152
Query: 126 AKVRINVDQAFHELVRIVLL 145
           A V+ NV + F  +VR V L
Sbjct: 153 AAVQHNVKELFEGIVRQVRL 172

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 48/150 (32%), Positives = 81/150 (54%), Gaps = 14/150 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F TDY PT+ D+++   V++     L + DTAGQE+++ +R    R  + F+L FS+  +
Sbjct: 33  FPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 92
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL--------DHQRQV--SSMDAQNVAR 115
            S+E + K  + I  +K      P+++VG K DL        DH   V  +++  + + +
Sbjct: 93  ASYENVSK--KWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKK 150
Query: 116 QLRIP-YIECSAKVRINVDQAFHELVRIVL 144
            +  P YIECS+K + NV   F   +R+VL
Sbjct: 151 LIGAPAYIECSSKSQENVKGVFDAAIRVVL 180

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 79/142 (55%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L I DTAGQE F  +   Y R   G +LV+
Sbjct: 24  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVY 83
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +TD  +F  I ++ + +      DE  +L+VGNK+D++  R V++   + +A++L IP+
Sbjct: 84  DITDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPF 141
Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV++ F  L +++
Sbjct: 142 IESSAKNDDNVNEIFFTLAKLI 163

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 80.5 bits (197), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 46/140 (32%), Positives = 81/140 (57%), Gaps = 5/140 (3%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+TD
Sbjct: 35  SDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITD 92
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE S
Sbjct: 93  RASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETS 152
Query: 126 AKVRINVDQAFHELVRIVLL 145
           A V+ NV + F  +VR V L
Sbjct: 153 AAVQHNVKELFEGIVRQVRL 172

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 80.5 bits (197), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 46/140 (32%), Positives = 81/140 (57%), Gaps = 5/140 (3%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+TD
Sbjct: 66  SDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITD 123
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE S
Sbjct: 124 RASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETS 183
Query: 126 AKVRINVDQAFHELVRIVLL 145
           A V+ NV + F  +VR V L
Sbjct: 184 AAVQHNVKELFEGIVRQVRL 203

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 80.5 bits (197), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 79/142 (55%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L + DTAGQE F  +   Y R   G +LV+
Sbjct: 41  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVY 100
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VTD  +F  I ++ + +      DE  +L+VGNK+D++  R V++   + +A++L IP+
Sbjct: 101 DVTDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPF 158
Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV++ F  L +++
Sbjct: 159 IESSAKNDDNVNEIFFTLAKLI 180

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 80.1 bits (196), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 79/142 (55%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L + DTAGQE F  +   Y R   G +LV+
Sbjct: 28  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVY 87
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VTD  +F  I ++ + +      DE  +L+VGNK+D++  R V++   + +A++L IP+
Sbjct: 88  DVTDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPF 145
Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV++ F  L +++
Sbjct: 146 IESSAKNDDNVNEIFFTLAKLI 167

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 80.1 bits (196), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 46/135 (34%), Positives = 75/135 (55%), Gaps = 2/135 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 39  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN 98
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF +  K+   + R +   +  +++VGNK DL  +RQVS+ + +  A++L + +IE S
Sbjct: 99  TNSFHQTSKWIDDV-RTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETS 157
Query: 126 AKVRINVDQAFHELV 140
           AK   NV Q F  + 
Sbjct: 158 AKAGYNVKQLFRRVA 172

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 80.1 bits (196), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 43  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 102
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 103 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 157

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 78/142 (54%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L I DTAGQE F  +   Y R   G +LV+
Sbjct: 24  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAXGIILVY 83
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +TD  +F  I ++ + +      DE  +L+VGNK+D +  R V++   + +A++L IP+
Sbjct: 84  DITDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSDXE-TRVVTADQGEALAKELGIPF 141
Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV++ F  L +++
Sbjct: 142 IESSAKNDDNVNEIFFTLAKLI 163

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 79.7 bits (195), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 50  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 109
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 110 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 164

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 79.7 bits (195), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 50  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 109
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 110 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 164

>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 = 79.7 bits (195), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 60  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 119
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 120 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 174

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 79.7 bits (195), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 42/112 (37%), Positives = 63/112 (56%), Gaps = 1/112 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 77  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 136
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F
Sbjct: 137 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSF 187

>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 = 79.7 bits (195), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 60  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 119
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 120 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 174

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 42/116 (36%), Positives = 64/116 (55%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 69  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 128
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VGNK DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 129 EN-VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 183

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 44/117 (37%), Positives = 63/117 (53%), Gaps = 1/117 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G +LV+ +T+  SF+ I  + R I     
Sbjct: 52  LDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHAS 111
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
            D   M++ GNK D++ +RQVS    + +A    I ++E SAK  INV+ AF  L R
Sbjct: 112 ADVEKMIL-GNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLAR 167

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 78/142 (54%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L + DTAGQE F  +   Y R   G +LV+
Sbjct: 24  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAXGIILVY 83
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VTD  +F  I ++ + +      DE  +L+VGNK+D +  R V++   + +A++L IP+
Sbjct: 84  DVTDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSDXE-TRVVTADQGEALAKELGIPF 141
Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV++ F  L +++
Sbjct: 142 IESSAKNDDNVNEIFFTLAKLI 163

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 79.3 bits (194), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 75/134 (55%), Gaps = 2/134 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 31  FDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITN 90
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 91  VNSFQQTTKWIDDV-RTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS 149
Query: 126 AKVRINVDQAFHEL 139
           AK   NV Q F  +
Sbjct: 150 AKAGYNVKQLFRRV 163

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score = 79.3 bits (194), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 41/113 (36%), Positives = 63/113 (55%), Gaps = 1/113 (0%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L I DTAGQE +  +   Y R   GFLL++ + ++ SF  +  +  QI +    D   +
Sbjct: 72  KLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQI-KTYSWDNAQV 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV 143
           ++VGNK DL+ +R V + D + +A  L   + E SAK  INV Q F  LV ++
Sbjct: 131 ILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVI 183

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 79.3 bits (194), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 46/149 (30%), Positives = 78/149 (52%), Gaps = 12/149 (8%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F TDY PT+ D+++   V+D     L + DTAGQE+++ +R    R  + F+L FS+  +
Sbjct: 31  FPTDYVPTVFDNFSANVVVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISK 90
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ----------VSSMDAQNVARQ 116
            S+E + K     LR       P+++VG K DL   +Q          +++   + + + 
Sbjct: 91  ASYENVAKKWIPELR-HYAPGVPIILVGTKLDLRDDKQFFIDHPGAVPITTNQGEELKKL 149
Query: 117 LRIP-YIECSAKVRINVDQAFHELVRIVL 144
           +  P YIECS+K + NV   F   +++VL
Sbjct: 150 IGSPIYIECSSKTQQNVKAVFDAAIKVVL 178

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 48/139 (34%), Positives = 72/139 (51%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  F + +  TI   +  + + +D    +L I DTAGQE F  +   Y R   G +LV+ 
Sbjct: 28  EDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYD 87
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T+  SF+ I  + R I      D   M++ GNK D++ +RQVS    + +A    I ++
Sbjct: 88  ITNEKSFDNIRNWIRNIEEHASADVEKMIL-GNKCDVNDKRQVSKERGEKLALDYGIKFM 146
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK  INV+ AF  L R
Sbjct: 147 ETSAKANINVENAFFTLAR 165

>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 = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 46/134 (34%), Positives = 75/134 (55%), Gaps = 2/134 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 26  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN 85
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 86  VNSFQQTTKWIDDV-RTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS 144
Query: 126 AKVRINVDQAFHEL 139
           AK   NV Q F  +
Sbjct: 145 AKAGYNVKQLFRRV 158

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/110 (37%), Positives = 62/110 (56%), Gaps = 1/110 (0%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L I DTAGQE +  +   Y R   GF+L++ +T+  SF  +  +  QI +    D   +
Sbjct: 73  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQI-KTYSWDNAQV 131
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
           ++VGNK D++ +R V +   Q +A QL   + E SAK  I+V QAF  LV
Sbjct: 132 ILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLV 181

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 2/139 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 27  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN 86
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQ++  + +  A++L + +IE S
Sbjct: 87  LNSFQQTSKWIDDV-RTERGSDVIIMLVGNKTDLADKRQITIEEGEQRAKELSVMFIETS 145
Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV Q F  +   +L
Sbjct: 146 AKTGYNVKQLFRRVASALL 164

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score = 77.4 bits (189), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 41/115 (35%), Positives = 70/115 (60%), Gaps = 2/115 (1%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           RL I DTAGQE F+++   Y RS +G +LV+ +T + +F+++ K+ + I +    D   +
Sbjct: 76  RLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDA-EL 134
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           L+VGNK D +  R+++    +  A+Q+  + + E SAK   NVD+ F +LV  +L
Sbjct: 135 LLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDIL 189

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 70/124 (56%), Gaps = 2/124 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAG E F ++   + R   GFLL+F +T + SF  +  +  Q L+     E P +
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ-LQANAYCENPDI 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
           +++GNKADL  QR+V+   A+ +A +  IPY E SA    NV+++   L+ +++   ++C
Sbjct: 131 VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEKC 190
Query: 151 KNST 154
              T
Sbjct: 191 VEKT 194

>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 = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 41/113 (36%), Positives = 60/113 (53%), Gaps = 1/113 (0%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L I DTAG E +  +   Y R   GF+L + +T+  SF  +  +  QI +    D   +
Sbjct: 58  KLQIWDTAGLERYRTITTAYYRGAXGFILXYDITNEESFNAVQDWSTQI-KTYSWDNAQV 116
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV 143
           L+VGNK D + +R VSS   + +A  L   + E SAK  INV Q F  LV ++
Sbjct: 117 LLVGNKCDXEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVI 169

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 76.3 bits (186), Expect = 7e-15,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 70/124 (56%), Gaps = 2/124 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAG E F ++   + R   GFLL+F +T + SF  +  +  Q L+     E P +
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQ-LQANAYCENPDI 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
           +++GNKADL  QR+V+   A+ +A +  IPY E SA    NV+++   L+ +++   ++C
Sbjct: 131 VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEKC 190
Query: 151 KNST 154
              T
Sbjct: 191 VEKT 194

>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 = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 68/124 (54%), Gaps = 2/124 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAG E F ++   + R   GFLL F +T + SF  +  +  Q L+     E P +
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQ-LQANAYCENPDI 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
           +++GNKADL  QR+V+   A+ +A +  IPY E SA    NV+++   L+ ++    ++C
Sbjct: 131 VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEKC 190
Query: 151 KNST 154
              T
Sbjct: 191 VEKT 194

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 41/116 (35%), Positives = 63/116 (54%), Gaps = 1/116 (0%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 52  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS 111
Query: 85  RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV 140
            +    L+VG K DL  ++ V    A+  A  L IP++E SAK   NV+Q+F  + 
Sbjct: 112 EN-VNKLLVGIKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMA 166

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 42/124 (33%), Positives = 68/124 (54%), Gaps = 2/124 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAG E F ++   + R   GFLL F +T + SF  +  +  Q L+     E P +
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQ-LQANAYCENPDI 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
           +++GNKADL  QR+V+   A+ +A +  IPY E SA    NV+++   L+ ++    ++C
Sbjct: 131 VLIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEKC 190
Query: 151 KNST 154
              T
Sbjct: 191 VEKT 194

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/135 (33%), Positives = 74/135 (54%), Gaps = 2/135 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAG E F ++   Y+R     ++V+ +T+
Sbjct: 38  FDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITN 97
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 98  VNSFQQTTKWIDDV-RTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS 156
Query: 126 AKVRINVDQAFHELV 140
           AK   NV Q F  + 
Sbjct: 157 AKAGYNVKQLFRRVA 171

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 75.5 bits (184), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 41/127 (32%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 11  YDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           +D TI   +  + + ID    +L I DTAGQE F ++   Y R   G LLV+ +T R++F
Sbjct: 39  HDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTF 98
Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR 129
             +  +     R        ++++GNK+DL+ +R+V   + +  AR+  + ++E SAK  
Sbjct: 99  NHLTTWLEDA-RQHSNSNMVIMLIGNKSDLESRREVKKEEGEAFAREHGLIFMETSAKTA 157
Query: 130 INVDQAF 136
            NV++AF
Sbjct: 158 SNVEEAF 164

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 44/143 (30%), Positives = 75/143 (52%), Gaps = 2/143 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE+ F  D + TI   +  + V +     +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 46  IENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 105
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R ++  +  +     R        +++ GNK DLD +R+V+ ++A   A++  + +
Sbjct: 106 DITSRETYNSLAAWLTDA-RTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMF 164
Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SA    NV++AF +  R +L
Sbjct: 165 LETSALTGENVEEAFLKCARTIL 187

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 75.1 bits (183), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 45/134 (33%), Positives = 74/134 (55%), Gaps = 2/134 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAG E F ++   Y+R     ++V+ +T+
Sbjct: 31  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITN 90
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 91  VNSFQQTTKWIDDV-RTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS 149
Query: 126 AKVRINVDQAFHEL 139
           AK   NV Q F  +
Sbjct: 150 AKAGYNVKQLFRRV 163

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/133 (33%), Positives = 71/133 (53%), Gaps = 2/133 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +Y  TI  D  +K   +D+ P RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 26  FDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITN 85
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE   K+ + IL  + +D   + +VGNK DL   R+V+  +    A++    + E S
Sbjct: 86  RQSFENTTKWIQDILNERGKDVI-IALVGNKTDLGDLRKVTYEEGXQKAQEYNTXFHETS 144
Query: 126 AKVRINVDQAFHE 138
           AK   N+   F +
Sbjct: 145 AKAGHNIKVLFKK 157

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 74.3 bits (181), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/135 (33%), Positives = 74/135 (54%), Gaps = 2/135 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAG E F ++   Y+R     ++V+ +T+
Sbjct: 41  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITN 100
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   + R +   +  +++VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 101 VNSFQQTTKWIDDV-RTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETS 159
Query: 126 AKVRINVDQAFHELV 140
           AK   NV Q F  + 
Sbjct: 160 AKAGYNVKQLFRRVA 174

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 74.3 bits (181), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E+ F   +  T++ S+ TK+  I      L I DTAGQE F A+   Y R   G +LV+ 
Sbjct: 28  ENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYD 87
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TD +SF+++  + ++ LR    +E  + +VGNK DL+ +R VS  +A++ A  +   + 
Sbjct: 88  ITDEDSFQKVKNWVKE-LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHY 146
Query: 123 ECSAKVRINVDQAFHELVR 141
             SAK    +++ F +L +
Sbjct: 147 HTSAKQNKGIEELFLDLCK 165

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 73.9 bits (180), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 77/139 (55%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E+ F   +  T++ S+ TK+  I      L I DTAGQE F A+   Y R   G +LV+ 
Sbjct: 42  ENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYD 101
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TD +SF+++  + ++ LR    +E  + +VGNK DL+ +R VS  +A++ A  +   + 
Sbjct: 102 ITDEDSFQKVKNWVKE-LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHY 160
Query: 123 ECSAKVRINVDQAFHELVR 141
             SAK    +++ F +L +
Sbjct: 161 HTSAKQNKGIEELFLDLCK 179

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 73.9 bits (180), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 42/127 (33%), Positives = 68/127 (53%), Gaps = 2/127 (1%)
Query: 11  YDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           +D TI   +  + V ID    +L I DTAGQE F ++   Y R   G LLV+ +T R +F
Sbjct: 50  HDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETF 109
Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR 129
             +  +     R        ++++GNK+DL+ +R V   + +  AR+  + ++E SAK  
Sbjct: 110 NHLTSWLEDA-RQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTA 168
Query: 130 INVDQAF 136
            NV++AF
Sbjct: 169 CNVEEAF 175

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 68/136 (50%), Gaps = 2/136 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +  DY  TI  D   K   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 33  YTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD 92
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  +  + ++I R         L+VGNK DL  +R V    A+  A   ++P++E S
Sbjct: 93  QESFNGVKMWLQEIDRYATSTVLK-LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETS 151
Query: 126 AKVRINVDQAFHELVR 141
           A    NV+ AF  + R
Sbjct: 152 ALDSTNVEDAFLTMAR 167

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 68/136 (50%), Gaps = 2/136 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +  DY  TI  D   K   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 33  YTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD 92
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  +  + ++I R         L+VGNK DL  +R V    A+  A   ++P++E S
Sbjct: 93  QESFNGVKMWLQEIDRYATSTVLK-LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETS 151
Query: 126 AKVRINVDQAFHELVR 141
           A    NV+ AF  + R
Sbjct: 152 ALDSTNVEDAFLTMAR 167

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 73.6 bits (179), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 47/136 (34%), Positives = 68/136 (50%), Gaps = 2/136 (1%)
Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +  DY  TI  D   K   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 46  YTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD 105
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  +  + ++I R         L+VGNK DL  +R V    A+  A   ++P++E S
Sbjct: 106 QESFNGVKMWLQEIDRYATSTVLK-LLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETS 164
Query: 126 AKVRINVDQAFHELVR 141
           A    NV+ AF  + R
Sbjct: 165 ALDSTNVEDAFLTMAR 180

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 75/131 (57%), Gaps = 1/131 (0%)
Query: 16  EDSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYK 74
           ED+Y ++ ++D     L + D   Q +    +R+  +++G+ FL+VFSVTDR SF ++ +
Sbjct: 58  EDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPE 117
Query: 75  FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ 134
              ++   +   + P+++VGNK+DL   R+VS  + +++A  L   +IE SA +  N  +
Sbjct: 118 TLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE 177
Query: 135 AFHELVRIVLL 145
            F   VR + L
Sbjct: 178 LFEGAVRQIRL 188

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 76/139 (54%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E+ F   +  T+  S+ TK+  I      L I DTAGQE F A+   Y R   G +LV+ 
Sbjct: 28  ENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYD 87
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TD +SF+++  + ++ LR    +E  + +VGNK DL+ +R VS  +A++ A  +   + 
Sbjct: 88  ITDEDSFQKVKNWVKE-LRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHY 146
Query: 123 ECSAKVRINVDQAFHELVR 141
             SAK    +++ F +L +
Sbjct: 147 HTSAKQNKGIEELFLDLCK 165

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 72.4 bits (176), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 69/128 (53%)
Query: 18  SYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR 77
           +Y +  V+D   A L + D   Q+    +    M  G+ +++V+SVTD+ SFE+  +   
Sbjct: 42  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 101
Query: 78  QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH 137
           Q+ R +  D+ P+++VGNK+DL   R+VS  + +  A      +IE SA +  NV   F 
Sbjct: 102 QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFE 161
Query: 138 ELVRIVLL 145
            +VR + L
Sbjct: 162 GVVRQIRL 169

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score = 72.4 bits (176), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 42/139 (30%), Positives = 74/139 (53%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  F+ D   TI   +  + + +     +L I DTAGQE F A+   Y R   G L+V+ 
Sbjct: 37  EKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYD 96
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R+++  +  +      + + +   ++++GNKADL+ QR V+  +A+  A +  + ++
Sbjct: 97  ITRRSTYNHLSSWLTDARNLTNPNTV-IILIGNKADLEAQRDVTYEEAKQFAEENGLLFL 155
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK   NV+ AF E  +
Sbjct: 156 EASAKTGENVEDAFLEAAK 174

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 69/128 (53%)
Query: 18  SYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR 77
           +Y +  V+D   A L + D   Q+    +    M  G+ +++V+SVTD+ SFE+  +   
Sbjct: 37  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 96
Query: 78  QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH 137
           Q+ R +  D+ P+++VGNK+DL   R+VS  + +  A      +IE SA +  NV   F 
Sbjct: 97  QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFE 156
Query: 138 ELVRIVLL 145
            +VR + L
Sbjct: 157 GVVRQIRL 164

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 72.4 bits (176), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 69/128 (53%)
Query: 18  SYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR 77
           +Y +  V+D   A L + D   Q+    +    M  G+ +++V+SVTD+ SFE+  +   
Sbjct: 42  TYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRV 101
Query: 78  QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH 137
           Q+ R +  D+ P+++VGNK+DL   R+VS  + +  A      +IE SA +  NV   F 
Sbjct: 102 QLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFE 161
Query: 138 ELVRIVLL 145
            +VR + L
Sbjct: 162 GVVRQIRL 169

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score = 72.0 bits (175), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 43/143 (30%), Positives = 74/143 (51%), Gaps = 2/143 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE  F  D + TI   +  + + +     +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 31  IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 90
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R ++  +  +     R+       +++ GNK DLD  R+V+ ++A   A++  + +
Sbjct: 91  DITSRETYNALTNWLTDA-RMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMF 149
Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SA    NV++AF +  R +L
Sbjct: 150 LETSALTGENVEEAFVQCARKIL 172

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score = 71.6 bits (174), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 37/113 (32%), Positives = 64/113 (56%), Gaps = 1/113 (0%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +  I DTAGQE + A+   Y R   G L+V+ ++  +S+E    +  + LR    D   +
Sbjct: 63  KAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSE-LRENADDNVAV 121
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV 143
            ++GNK+DL H R V + +++  A++ ++ + E SA    NVD+AF EL+  +
Sbjct: 122 GLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTI 174

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 40/131 (30%), Positives = 75/131 (57%), Gaps = 1/131 (0%)
Query: 16  EDSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYK 74
           ED+Y ++ ++D     L + D   Q +    +++  +++G+ FL+VFSVTDR SF ++ +
Sbjct: 37  EDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPE 96
Query: 75  FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ 134
              ++   +   + P+++VGNK+DL   R+VS  + +++A  L   +IE SA +  N  +
Sbjct: 97  TLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE 156
Query: 135 AFHELVRIVLL 145
            F   VR + L
Sbjct: 157 LFEGAVRQIRL 167

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 71.2 bits (173), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 40/131 (30%), Positives = 75/131 (57%), Gaps = 1/131 (0%)
Query: 16  EDSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYK 74
           ED+Y ++ ++D     L + D   Q +    +++  +++G+ FL+VFSVTDR SF ++ +
Sbjct: 47  EDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPE 106
Query: 75  FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ 134
              ++   +   + P+++VGNK+DL   R+VS  + +++A  L   +IE SA +  N  +
Sbjct: 107 TLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE 166
Query: 135 AFHELVRIVLL 145
            F   VR + L
Sbjct: 167 LFEGAVRQIRL 177

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI+ ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+ ++F 
Sbjct: 35  ESTIQAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFA 94
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL  +R V   +AQ  A    + ++E SAK  +
Sbjct: 95  RAKNWVKELQR-QASPNIVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAM 153
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 154 NVNEIFMAIAK 164

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 37  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 96
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 97  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 155
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 156 NVNEIFMAIAK 166

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 40/123 (32%), Positives = 65/123 (52%), Gaps = 2/123 (1%)
Query: 16  EDSYTKQCVIDDIPARLDILDTAGQEEF--SAMREQYMRSGEGFLLVFSVTDRNSFEEIY 73
           ED Y +   +D     L ++DT   E+   S  +E  ++ G  +++V+S+ DR SFE   
Sbjct: 38  EDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESAS 97
Query: 74  KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVD 133
           +   Q+ R    D  P+++VGNKADL   R+VS  + +  A      +IE SA ++ NV 
Sbjct: 98  ELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVA 157
Query: 134 QAF 136
           + F
Sbjct: 158 ELF 160

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 72/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 36  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFA 95
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 96  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 154
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 155 NVNEIFMAIAK 165

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score = 70.5 bits (171), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 39/114 (34%), Positives = 64/114 (56%), Gaps = 2/114 (1%)
Query: 32  LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-M 90
           L + DTAG E F ++   + R   GFLL+F +T+  SF  +  +  Q L++    E P +
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQ-LQMHAYSENPDI 130
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL 144
           ++ GNK+DL+ QR V   +A+ +A +  IPY E SA    N+  A   L+ +++
Sbjct: 131 VLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIM 184

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score = 70.1 bits (170), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 41/139 (29%), Positives = 73/139 (52%), Gaps = 2/139 (1%)
Query: 4   ESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           E  F+ D   TI   +  + + +     +L I DTAGQ  F A+   Y R   G L+V+ 
Sbjct: 52  EKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQGRFRAVTRSYYRGAAGALMVYD 111
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T R+++  +  +      + + +   ++++GNKADL+ QR V+  +A+  A +  + ++
Sbjct: 112 ITRRSTYNHLSSWLTDARNLTNPNTV-IILIGNKADLEAQRDVTYEEAKQFAEENGLLFL 170
Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK   NV+ AF E  +
Sbjct: 171 EASAKTGENVEDAFLEAAK 189

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score = 70.1 bits (170), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 42/143 (29%), Positives = 74/143 (51%), Gaps = 2/143 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE  F  D + TI   +  + + +     +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 32  IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 91
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R ++  +  +     R+       +++ GNK DLD  R+V+ ++A   A++  + +
Sbjct: 92  DITSRETYNALTNWLTDA-RMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMF 150
Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SA    +V++AF +  R +L
Sbjct: 151 LETSALTGEDVEEAFVQCARKIL 173

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score = 70.1 bits (170), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 44/140 (31%), Positives = 71/140 (50%), Gaps = 2/140 (1%)
Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F  + +PTI  S+ TK     +   +  I DTAGQE F A+   Y R     ++V+
Sbjct: 26  VEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQERFRALAPMYYRGSAAAIIVY 85
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T   +F  +  + R+ LR        + + GNK DL   R+V   DA++ A  +   +
Sbjct: 86  DITKEETFSTLKNWVRE-LRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIF 144
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK  IN+++ F E+ R
Sbjct: 145 VETSAKNAININELFIEISR 164

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 69.7 bits (169), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 71/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+ ++F 
Sbjct: 33  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNTDTFA 92
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL  +R V   +AQ  A    + ++E SAK  +
Sbjct: 93  RAKNWVKELQR-QASPNIVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAM 151
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 152 NVNEIFMAIAK 162

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score = 69.7 bits (169), Expect = 6e-13,   Method: Compositional matrix adjust.
 Identities = 39/121 (32%), Positives = 67/121 (55%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +++   +  I DTAG E + A+   Y R   G L+V+ ++  +S+E    +  + 
Sbjct: 49  TRTIEVENKKIKAQIWDTAGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLTE- 107
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR    D   + ++GNK+DL H R V + +A+N A + ++ + E SA    NVD+AF EL
Sbjct: 108 LRENADDNVAVGLIGNKSDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFREL 167
Query: 140 V 140
           +
Sbjct: 168 I 168

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score = 69.7 bits (169), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 45/139 (32%), Positives = 71/139 (51%), Gaps = 6/139 (4%)
Query: 11  YDPTIE-----DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +DP +      D   K   +D   A+L I DTAGQE F  +   Y R  +G +LV+ VT 
Sbjct: 40  FDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR 99
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R++F ++  +  ++     R++    +VGNK D ++ R+V   +    AR+    +IE S
Sbjct: 100 RDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN-REVDRNEGLKFARKHSXLFIEAS 158
Query: 126 AKVRINVDQAFHELVRIVL 144
           AK    V  AF ELV  ++
Sbjct: 159 AKTCDGVQCAFEELVEKII 177

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score = 69.3 bits (168), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 38/131 (29%), Positives = 70/131 (53%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 37  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPXYYRGAQAAIVVYDITNEESFA 96
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + + E SAK   
Sbjct: 97  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFXETSAKTSX 155
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 156 NVNEIFXAIAK 166

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 45/142 (31%), Positives = 74/142 (52%), Gaps = 3/142 (2%)
Query: 4   ESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++ F   Y  TI   +  + V I+    +L I DTAGQE F  +   Y R   G ++V+ 
Sbjct: 31  DNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYD 90
Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SF  + ++  +I   ++ D+   ++VGNK D   ++ V + DA   A Q+ I   
Sbjct: 91  VTSAESFVNVKRWLHEI--NQNCDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLF 148
Query: 123 ECSAKVRINVDQAFHELVRIVL 144
           E SAK  +NV++ F+ +  +VL
Sbjct: 149 ETSAKENVNVEEMFNCITELVL 170

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 42/140 (30%), Positives = 72/140 (51%), Gaps = 2/140 (1%)
Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           ++ +F  +  PTI  S+ TK     +   +  I DTAGQE F ++   Y R     ++V+
Sbjct: 44  VQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVY 103
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T ++SF  + K+ ++ L+    +   M + GNK DL   R+V   DA+  A  +    
Sbjct: 104 DITKQDSFYTLKKWVKE-LKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIV 162
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK  IN+++ F  + R
Sbjct: 163 VETSAKNAINIEELFQGISR 182

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 68.6 bits (166), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 65/121 (53%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAGQE + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 59  TRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 117
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 118 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 177
Query: 140 V 140
           +
Sbjct: 178 L 178

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/121 (31%), Positives = 65/121 (53%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAGQE + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 68  TRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 126
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 127 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186
Query: 140 V 140
           +
Sbjct: 187 L 187

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 40/107 (37%), Positives = 61/107 (57%), Gaps = 2/107 (1%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L I DTAGQE F  + + Y RS  G +L + +T R+SF  +  +   + +    +    
Sbjct: 79  KLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSN-IVQ 137
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAF 136
           L++GNK+DL   R+VS  +AQ++A    I   IE SAK   NV++AF
Sbjct: 138 LLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAF 184

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 32  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 91
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 92  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 149
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 150 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 31  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 90
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 91  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 148
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 149 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 180

>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 = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 30  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 89
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 90  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 147
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 148 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 179

>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 = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>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 = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 30  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 89
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 90  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 147
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 148 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 179

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 38  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 97
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 98  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 155
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 156 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 187

>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 = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 31  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 90
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 91  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 148
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 149 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 180

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 71/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T++ +F 
Sbjct: 38  ESTIGAAFLTQSVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNQETFA 97
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ  A    + ++E SAK  +
Sbjct: 98  RAKTWVKELQR-QASPSIVIALAGNKADLANKRMVEYEEAQAYADDNSLLFMETSAKTAM 156
Query: 131 NVDQAFHELVR 141
           NV+  F  + +
Sbjct: 157 NVNDLFLAIAK 167

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 68.2 bits (165), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 35  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 94
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 95  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 152
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 153 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 184

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 37/131 (28%), Positives = 71/131 (54%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAG E + ++   Y R  +  ++V+ +T+  SF 
Sbjct: 35  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNEESFA 94
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL ++R V   +AQ+ A    + ++E SAK  +
Sbjct: 95  RAKNWVKELQR-QASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSM 153
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 154 NVNEIFMAIAK 164

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>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 = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 29  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 88
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 89  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 146
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 147 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 178

>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 = 67.8 bits (164), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 35  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 94
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 95  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 152
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 153 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 184

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 67.8 bits (164), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQRGLKNVFDEAILAAL 177

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 41/128 (32%), Positives = 68/128 (53%), Gaps = 5/128 (3%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAGQE +  +   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 44  TRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 102
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH-- 137
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV++AF   
Sbjct: 103 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNI 162
Query: 138 --ELVRIV 143
             E+ RIV
Sbjct: 163 LTEIYRIV 170

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y     I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVXIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>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 = 67.4 bits (163), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 41/143 (28%), Positives = 73/143 (51%), Gaps = 2/143 (1%)
Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE  F  D + TI   +  + + +     +L I DTAG E F ++   Y R   G LLV+
Sbjct: 29  IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLERFRSVTRSYYRGAAGALLVY 88
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R ++  +  +     R+       +++ GNK DLD  R+V+ ++A   A++  + +
Sbjct: 89  DITSRETYNALTNWLTDA-RMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMF 147
Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SA    +V++AF +  R +L
Sbjct: 148 LETSALTGEDVEEAFVQCARKIL 170

>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 = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 43/140 (30%), Positives = 70/140 (50%), Gaps = 2/140 (1%)
Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F  + +PTI  S+ TK     +   +  I DTAG E F A+   Y R     ++V+
Sbjct: 27  VEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVY 86
Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T   +F  +  + R+ LR        + + GNK DL   R+V   DA++ A  +   +
Sbjct: 87  DITKEETFSTLKNWVRE-LRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIF 145
Query: 122 IECSAKVRINVDQAFHELVR 141
           +E SAK  IN+++ F E+ R
Sbjct: 146 VETSAKNAININELFIEISR 165

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 67.0 bits (162), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 36/131 (27%), Positives = 70/131 (53%), Gaps = 2/131 (1%)
Query: 12  DPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           + TI  ++  Q V +DD   + +I DTAG E + ++   Y R  +  ++V+ +T+ ++F 
Sbjct: 35  ESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHSLAPMYYRGAQAAIVVYDITNTDTFA 94
Query: 71  EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI 130
               + +++ R +      + + GNKADL  +R V   +AQ  A    + ++E SAK  +
Sbjct: 95  RAKNWVKELQR-QASPNIVIALAGNKADLASKRAVEFQEAQAYADDNSLLFMETSAKTAM 153
Query: 131 NVDQAFHELVR 141
           NV++ F  + +
Sbjct: 154 NVNEIFMAIAK 164

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 66.6 bits (161), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 45/152 (29%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLRDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 66.2 bits (160), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 42/141 (29%), Positives = 74/141 (52%), Gaps = 10/141 (7%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMR--EQYMRSGEGFLLVFSVT 64
           F+++YDP +ED+Y+ +  +D  P  L ++DTA   +    R  E+Y+     FL+V+SV 
Sbjct: 46  FISEYDPNLEDTYSSEETVDHQPVHLRVMDTA---DLDTPRNCERYLNWAHAFLVVYSV- 101
Query: 65  DRNSFEEIYKFHRQILRVKDRD---EFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           D     +    + ++L +  ++     P L++GNK D+   RQV+  +   +A +    +
Sbjct: 102 DSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLF 161
Query: 122 IECSAKVRI-NVDQAFHELVR 141
            E SA +   +V   FHE VR
Sbjct: 162 FEVSACLDFEHVQHVFHEAVR 182

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/150 (29%), Positives = 74/150 (49%), Gaps = 16/150 (10%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
           ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   +S
Sbjct: 30  SEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSS 89
Query: 69  FEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNVAR 115
           FE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +AR
Sbjct: 90  FENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLAR 147
Query: 116 QLR-IPYIECSAKVRINVDQAFHELVRIVL 144
            L+ + Y+ECSA  +  +   F E +   L
Sbjct: 148 DLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y P + D+Y    +I   P  L + DTAGQE++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPAVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNV 113
            SFE +  K++ ++         P+L+VG K DL   +             ++      +
Sbjct: 88  ASFENVRAKWYPEVRH--HCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           AR++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AREIGSVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 66.2 bits (160), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 29  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 88
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNV 113
            SFE +  K++ ++         P+L+VG K DL   +             ++      +
Sbjct: 89  ASFENVRAKWYPEVRH--HCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAM 146
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           AR++  + Y+ECSA  +  +   F E +R VL
Sbjct: 147 AREIGSVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 65.9 bits (159), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 46/155 (29%), Positives = 70/155 (45%), Gaps = 16/155 (10%)
Query: 4   ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
           +  F   Y PT+ + Y     +   P  L I DTAGQ+++  +R  +       LL F V
Sbjct: 56  DGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDV 115
Query: 64  TDRNSFEEIYKFHRQILRVKDR-DEFPMLMVGNKADLDHQRQ------------VSSMDA 110
           T  NSF+ I  F+R    V     + P+++VG K DL   +             V+    
Sbjct: 116 TSPNSFDNI--FNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRG 173
Query: 111 QNVARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           Q +AR +  + Y+ECSA++  NV   F E   + L
Sbjct: 174 QEMARSVGAVAYLECSARLHDNVHAVFQEAAEVAL 208

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 65.9 bits (159), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 29  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 88
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNV 113
            SFE +  K++ ++         P+L+VG K DL   +             ++      +
Sbjct: 89  ASFENVRAKWYPEVRH--HCPHTPILLVGTKLDLRDDKDTIERLRDKKLAPITYPQGLAM 146
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           AR++  + Y+ECSA  +  +   F E +R VL
Sbjct: 147 AREIGSVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 65.9 bits (159), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 64/121 (52%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAG E + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 47  TRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 105
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 106 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 165
Query: 140 V 140
           +
Sbjct: 166 L 166

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 64/121 (52%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAG E + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 68  TRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 126
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        +++VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 127 LRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 186
Query: 140 V 140
           +
Sbjct: 187 L 187

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 65.5 bits (158), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAG E++  +R       + FL+ FSV   
Sbjct: 28  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLSYPQTDVFLVCFSVVSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 88  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 145
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 146 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 177

>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 = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F ++Y PT+ D+Y    +I   P  L + DTAG E++  +R       + FL+ FSV   
Sbjct: 32  FPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGLEDYDRLRPLSYPQTDVFLVCFSVVSP 91
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           +SFE +  K+  +I     +   P L+VG + DL            + Q+ ++   A+ +
Sbjct: 92  SSFENVKEKWVPEITHHCPKT--PFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKL 149
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           AR L+ + Y+ECSA  +  +   F E +   L
Sbjct: 150 ARDLKAVKYVECSALTQKGLKNVFDEAILAAL 181

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 42/143 (29%), Positives = 74/143 (51%), Gaps = 14/143 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           + T+Y PT  D+++    +D  P RL + DTAGQ+EF  +R     + + FLL FSV   
Sbjct: 45  YPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSP 104
Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVA 114
           +SF+ + +     +R     + P+++VG ++DL              ++ V    A+ +A
Sbjct: 105 SSFQNVSEKWVPEIRCH-CPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLA 163
Query: 115 RQLRIP-YIECSAKVRINVDQAF 136
            +++   YIECSA  + N+ + F
Sbjct: 164 EEIKAASYIECSALTQKNLKEVF 186

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 63/121 (52%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAG E + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 44  TRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 102
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        + +VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 103 LRDHADSNIVIXLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 162
Query: 140 V 140
           +
Sbjct: 163 L 163

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 63/121 (52%), Gaps = 1/121 (0%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+   +D    +  I DTAG E + A+   Y R   G LLV+ +    ++E + ++ ++ 
Sbjct: 50  TRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKE- 108
Query: 80  LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           LR        + +VGNK+DL H R V + +A+  A +  + +IE SA    NV+ AF  +
Sbjct: 109 LRDHADSNIVIXLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTI 168
Query: 140 V 140
           +
Sbjct: 169 L 169

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 41/133 (30%), Positives = 70/133 (52%), Gaps = 1/133 (0%)
Query: 17  DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH 76
           D   K   I+    +L I DTAGQE F ++ + Y RS    +L + +T   SF  + ++ 
Sbjct: 62  DFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWL 121
Query: 77  RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAF 136
           R+I +    ++   ++VGNK DL  +R+VS   A+  +    + Y+E SAK   NV++ F
Sbjct: 122 REIEQYAS-NKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF 180
Query: 137 HELVRIVLLHTKQ 149
            +L   ++   +Q
Sbjct: 181 LDLACRLISEARQ 193

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 51  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 108
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 109 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 159

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 38/134 (28%), Positives = 73/134 (54%), Gaps = 5/134 (3%)
Query: 7   FVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  + +PTI  ++ T++  I++   + +I DTAGQE F+++   Y R+ +  L+V+ VT 
Sbjct: 28  FAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTK 87
Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL---DHQRQVSSMDAQNVARQLRIPYI 122
             SF +   + +++     +D   + +VGNK D      +R+V+  + + +A +  + + 
Sbjct: 88  PQSFIKARHWVKELHEQASKD-IIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFF 146
Query: 123 ECSAKVRINVDQAF 136
           E SAK   NV+  F
Sbjct: 147 ETSAKTGENVNDVF 160

>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 = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 38  FSGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 97
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 98  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 155
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 156 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 187

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 63.9 bits (154), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 47  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 106
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 107 ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 164
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 165 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 196

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>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 = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 35  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 94
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 95  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 152
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 153 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 76/152 (50%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 55  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 114
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 115 ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 172
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 173 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 63  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 120
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 121 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 171

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 63.5 bits (153), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 63  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 120
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 121 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 171

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 63.5 bits (153), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 33/115 (28%), Positives = 65/115 (56%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  +R+ Y    +  ++ F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 66/115 (57%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE++  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGQEKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>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 = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 41/151 (27%), Positives = 75/151 (49%), Gaps = 16/151 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIV 143
           A+++  + Y+ECSA  +  +   F E +R V
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAV 176

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 41/149 (27%), Positives = 75/149 (50%), Gaps = 16/149 (10%)
Query: 10  DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+    SF
Sbjct: 58  EYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASF 117
Query: 70  EEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV-----------ARQ 116
           E +  K++ ++         P+++VG K DL D +  +  +  + +           A++
Sbjct: 118 ENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKE 175
Query: 117 L-RIPYIECSAKVRINVDQAFHELVRIVL 144
           +  + Y+ECSA  +  +   F E +R VL
Sbjct: 176 IGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAGQE+F  + + Y    +  +++F VT R +++ +  +HR ++RV +    
Sbjct: 58  PIKFNVWDTAGQEKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCEN--I 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/111 (29%), Positives = 63/111 (56%), Gaps = 4/111 (3%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           + D+ DTAG E+F  +R+ Y  + +  +++F VT R +++ +  +HR ++RV   +  P+
Sbjct: 54  KFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPI 111
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
           ++ GNK D+  +R+V +       R+  + Y + SAK   N ++ F  L R
Sbjct: 112 VLCGNKVDVK-ERKVKA-KTITFHRKKNLQYYDISAKSNYNFEKPFLWLAR 160

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 73/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 34  FPGEYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 93
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNV 113
            S+E +  K+  ++         P+++VG K DL   +             ++      +
Sbjct: 94  ASYENVRAKWFPEVRH--HCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLAL 151
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 152 AKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 183

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/111 (29%), Positives = 63/111 (56%), Gaps = 4/111 (3%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           + D+ DTAG E+F  +R+ Y  + +  +++F VT R +++ +  +HR ++RV   +  P+
Sbjct: 55  KFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPI 112
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
           ++ GNK D+  +R+V +       R+  + Y + SAK   N ++ F  L R
Sbjct: 113 VLCGNKVDVK-ERKVKA-KTITFHRKKNLQYYDISAKSNYNFEKPFLWLAR 161

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 72/152 (47%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNVARQL------- 117
            S+E +  K+  ++         P+++VG K DL D +  +  +  + +A          
Sbjct: 88  ASYENVRAKWFPEVRH--HCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLAL 145
Query: 118 -----RIPYIECSAKVRINVDQAFHELVRIVL 144
                 + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAG E+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 54  PIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 111
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 112 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 162

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 73/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 35  FPGEYIPTVFDNYSANVMVDSKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 94
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNV 113
            S+E +  K+  ++         P+++VG K DL   +             ++      +
Sbjct: 95  ASYENVRAKWFPEVRH--HCPSTPIILVGTKLDLRDDKDTIEKLKEKKLAPITYPQGLAL 152
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 153 AKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAG E+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 60  PIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 117
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 118 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 168

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 61.6 bits (148), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 31  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 90
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 91  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 148
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 149 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 180

>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 = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/111 (29%), Positives = 63/111 (56%), Gaps = 4/111 (3%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           + D+ DTAG E+F  +R+ Y  + +  +++F VT R +++ +  +HR ++RV   +  P+
Sbjct: 62  KFDVWDTAGLEKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLVRV--CENIPI 119
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
           ++ GNK D+  +R+V +       R+  + Y + SAK   N ++ F  L R
Sbjct: 120 VLCGNKVDV-KERKVKA-KTITFHRKKNLQYYDISAKSNYNFEKPFLWLAR 168

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 55  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 114
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 115 ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 172
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 173 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 61.2 bits (147), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/115 (27%), Positives = 65/115 (56%), Gaps = 8/115 (6%)
Query: 29  PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF 88
           P + ++ DTAG E+F  +R+ Y    +  +++F VT R +++ +  +HR ++RV   +  
Sbjct: 58  PIKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRV--CENI 115
Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVA--RQLRIPYIECSAKVRINVDQAFHELVR 141
           P+++ GNK D+  ++    + A+++   R+  + Y + SAK   N ++ F  L R
Sbjct: 116 PIVLCGNKVDIKDRK----VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLAR 166

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 32  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP 91
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 92  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 149
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 150 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 181

>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 = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 28  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP 87
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 88  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 146 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 60.8 bits (146), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 75/152 (49%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP 89
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SFE +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 90  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 148 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 65/124 (52%), Gaps = 5/124 (4%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+  ++     +  I DTAG E + A+   Y R   G LLVF +T   ++  + ++ +++
Sbjct: 49  TRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKEL 108
Query: 80  LRVKDRDEFPM--LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH 137
               D  E  +  ++VGNK+DL   R+V + +A+  A    + ++E SA    NV+ AF 
Sbjct: 109 Y---DHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFE 165
Query: 138 ELVR 141
            +++
Sbjct: 166 TVLK 169

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score = 60.5 bits (145), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 35/124 (28%), Positives = 65/124 (52%), Gaps = 5/124 (4%)
Query: 20  TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI 79
           T+  ++     +  I DTAG E + A+   Y R   G LLVF +T   ++  + ++ +++
Sbjct: 64  TRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKEL 123
Query: 80  LRVKDRDEFPM--LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFH 137
               D  E  +  ++VGNK+DL   R+V + +A+  A    + ++E SA    NV+ AF 
Sbjct: 124 Y---DHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFE 180
Query: 138 ELVR 141
            +++
Sbjct: 181 TVLK 184

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 180 FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 239
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SF  +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 240 ASFHHVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 297
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 298 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 180 FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 239
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SF  +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 240 ASFHHVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 297
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 298 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 58.2 bits (139), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 74/152 (48%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+   
Sbjct: 180 FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSP 239
Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQVSSMDAQNV----------- 113
            SF  +  K++ ++         P+++VG K DL D +  +  +  + +           
Sbjct: 240 ASFHHVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 297
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 298 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 329

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 57.4 bits (137), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 39/129 (30%), Positives = 64/129 (49%), Gaps = 7/129 (5%)
Query: 21  KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL 80
           K  ++D     L + DTAGQE F ++ + Y R  +G LL++ VT   SF  I ++   ++
Sbjct: 68  KTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREW-VDMI 126
Query: 81  RVKDRDEFPMLMVGNKADL------DHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ 134
                +  P+++VGNKAD+      + Q+ V     + +A      + E SAK   N+ +
Sbjct: 127 EDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVE 186
Query: 135 AFHELVRIV 143
           A   L R V
Sbjct: 187 AVLHLAREV 195

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 43/149 (28%), Positives = 69/149 (46%), Gaps = 16/149 (10%)
Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++Y     +D     L + DTAGQE++  +R          L+ FS+   +S E
Sbjct: 39  YVPTVFENYVADVEVDGRRVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLE 98
Query: 71  EIY-KFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNVARQL 117
            +  K+  ++L        P+++VG K DL            + Q+ V+S + Q+VA Q+
Sbjct: 99  NVQEKWIAEVLHFCQG--VPIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQI 156
Query: 118 R-IPYIECSAKVRINVDQAFHELVRIVLL 145
               Y ECSAK    V + F    R  L+
Sbjct: 157 GATGYYECSAKTGYGVREVFEAATRASLM 185

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 56.2 bits (134), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 44/171 (25%), Positives = 79/171 (46%), Gaps = 35/171 (20%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMR---------EQYMRS---- 53
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R         E Y +     
Sbjct: 30  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTVGETYGKDITSR 89
Query: 54  ------GEGFLLVFSVTDRNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL-DHQRQV 105
                  + FL+ FS+    SFE +  K++ ++         P+++VG K DL D +  +
Sbjct: 90  GKDKPIADVFLICFSLVSPASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTI 147
Query: 106 SSMDAQNV-----------ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
             +  + +           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 148 EKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 198

>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 = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 69/142 (48%), Gaps = 3/142 (2%)
Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPA--RLDILDTAGQEEFSAMREQYMRSGEGFLLV 60
           ++  F  +Y+ T+         +DD     + ++ DTAGQE+ + +++ Y     G +L 
Sbjct: 32  LDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILF 91
Query: 61  FSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           F VT R + + + ++ ++   V   +E P+++  NK D+ +++++S      V +     
Sbjct: 92  FDVTSRITCQNLARWVKEFQAVVG-NEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYE 150
Query: 121 YIECSAKVRINVDQAFHELVRI 142
           Y E SAK   N    F  L RI
Sbjct: 151 YFEISAKTAHNFGLPFLHLARI 172

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 55.5 bits (132), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 28/75 (37%), Positives = 42/75 (56%), Gaps = 1/75 (1%)
Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD 84
           +D    +L I DTAGQE F  +   Y R   G ++V+ VTD+ SF  + ++ ++I R   
Sbjct: 42  LDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYA- 100
Query: 85  RDEFPMLMVGNKADL 99
            +    L+VGNK DL
Sbjct: 101 SENVNKLLVGNKCDL 115

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 30/109 (27%), Positives = 58/109 (53%), Gaps = 4/109 (3%)
Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           + DI DTAGQE ++++   Y R     ++VF +++ N+ +    +  Q+   K    + +
Sbjct: 94  KFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQL---KISSNYII 150
Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHEL 139
           ++V NK D  ++ QV  ++ Q  A+   + +I+ SAK   N+   F+ L
Sbjct: 151 ILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYML 198

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 54.7 bits (130), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 72/152 (47%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 50  FPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 109
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I +  +    VK      P+++VGNK DL   +H R+         V S + +++
Sbjct: 110 DSLENIPE--KWTPEVKHFXPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDM 167
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 168 ANRISAFGYLECSAKTKEGVREVFEMATRAGL 199

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 44/152 (28%), Positives = 72/152 (47%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 50  FPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 109
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I +  +    VK      P+++VGNK DL   +H R+         V S + +++
Sbjct: 110 DSLENIPE--KWTPEVKHFCPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDM 167
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 168 ANRISAFGYLECSAKTKEGVREVFEMATRAGL 199

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 72/152 (47%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V S + +++
Sbjct: 90  DSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDM 147
Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 148 ANRISAFGYLECSAKTKEGVREVFEMATRAGL 179

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 33  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 92
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I    +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 93  DSLENIP--EKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 150
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 151 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 191

>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 = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 32  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 91
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I    +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 92  DSLENIP--EKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 149
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 150 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 190

>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 = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 74/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 32  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 91
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I +  +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 92  DSLENIPE--KWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 149
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 150 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 190

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I    +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 90  DSLENIP--EKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 148 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 188

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 53.5 bits (127), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I    +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 90  DSLENIP--EKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 148 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 188

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 28  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V   + +++
Sbjct: 88  DSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 146 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 177

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 45/161 (27%), Positives = 73/161 (45%), Gaps = 16/161 (9%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I    +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 90  DSLENIP--EKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           A ++    Y+ECSAK +  V + F    R  L   +  K S
Sbjct: 148 ANRIGAFGYMECSAKTKDGVREVFEMATRAALQARRGKKKS 188

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 28  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 87
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V   + +++
Sbjct: 88  DSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 145
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 146 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 177

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V   + +++
Sbjct: 90  DSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 148 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 179

>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 = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 70/148 (47%), Gaps = 16/148 (10%)
Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   +S E
Sbjct: 36  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 95
Query: 71  EIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNVARQL 117
            I +  +    VK      P+++VGNK DL   +H R+         V   + +++A ++
Sbjct: 96  NIPE--KWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRI 153
Query: 118 -RIPYIECSAKVRINVDQAFHELVRIVL 144
               Y+ECSAK +  V + F    R  L
Sbjct: 154 GAFGYMECSAKTKDGVREVFEMATRAAL 181

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 68/152 (44%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++   R       +  L+ FS+   
Sbjct: 30  FPAVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRARPLSYPDTDVILMCFSIDSP 89
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADLDH------------QRQVSSMDAQNV 113
           +S E I +  +    VK      P+++VGNK DL +            Q  V   + +++
Sbjct: 90  DSLENIPE--KWTPEVKHFCPNVPIILVGNKKDLRNDEHTARELAKMKQEPVKPAEGRDM 147
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 148 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 179

>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 = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/152 (27%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 31  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 90
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V   + +++
Sbjct: 91  DSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 148
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 149 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 180

>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 = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 70/148 (47%), Gaps = 16/148 (10%)
Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   +S E
Sbjct: 35  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLE 94
Query: 71  EIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNVARQL 117
            I +  +    VK      P+++VGNK DL   +H R+         V   + +++A ++
Sbjct: 95  NIPE--KWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRI 152
Query: 118 -RIPYIECSAKVRINVDQAFHELVRIVL 144
               Y+ECSAK +  V + F    R  L
Sbjct: 153 GAFGYMECSAKTKDGVREVFEMATRAAL 180

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 53.5 bits (127), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 34  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSP 93
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I +  +    VK      P+++VGNK DL   +H R+         V   + +++
Sbjct: 94  DSLENIPE--KWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 151
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 152 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 183

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 53.5 bits (127), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 71/148 (47%), Gaps = 16/148 (10%)
Query: 11  YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE 70
           Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FSV   +S E
Sbjct: 54  YVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLE 113
Query: 71  EIYKFHRQILRVKD-RDEFPMLMVGNKADL---DHQR-QVSSMDAQNV------ARQLRI 119
            I +  + +  VK      P+++V NK DL   +H R +++ M  + V      A  +RI
Sbjct: 114 NIPE--KWVPEVKHFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRI 171
Query: 120 P---YIECSAKVRINVDQAFHELVRIVL 144
               Y+ECSAK +  V + F    R  L
Sbjct: 172 QAYDYLECSAKTKEGVREVFETATRAAL 199

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 52.0 bits (123), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 1/104 (0%)
Query: 25  IDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK 83
           ID    ++ + DTAGQE F  +M + Y R+    + V+ +T+  SF  +  +  +  +  
Sbjct: 64  IDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHL 123
Query: 84  DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK 127
             ++ P ++VGNK DL    QV +  AQ  A    +P  E SAK
Sbjct: 124 LANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAK 167

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 51.6 bits (122), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 26  DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR 85
            ++   L I D  GQ     M ++Y+   +G LLV+ +T+  SFE +  ++  + +V + 
Sbjct: 52  GNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEE 111
Query: 86  DEF-PML-MVGNKADLDHQRQV 105
            E  P++ +VGNK DL+H R +
Sbjct: 112 SETQPLVALVGNKIDLEHMRTI 133

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 51.2 bits (121), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 38/152 (25%), Positives = 71/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D Y     +      L + DTAGQE++  +R       + FL+ FSV + 
Sbjct: 43  FPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNP 102
Query: 67  NSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADL-DHQRQVSSMD-----------AQNV 113
            SF+ + +    +  +K+     P L++G + DL D  + ++ ++            Q +
Sbjct: 103 ASFQNVKE--EWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKL 160
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A+++    Y+ECSA  +  +   F E +  +L
Sbjct: 161 AKEIGACCYVECSALTQKGLKTVFDEAIIAIL 192

>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 = 51.2 bits (121), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 51/104 (49%), Gaps = 1/104 (0%)
Query: 25  IDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK 83
           ID    ++ + DTAGQE F  +M + Y R+    + V+  T+  SF  +  +  +  +  
Sbjct: 73  IDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHL 132
Query: 84  DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK 127
             ++ P ++VGNK DL    QV +  AQ  A     P  E SAK
Sbjct: 133 LANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSXPLFETSAK 176

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/140 (27%), Positives = 71/140 (50%), Gaps = 6/140 (4%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
           T Y PT+ ++++      +    L + DTAGQEE+  +R       +  LL F+V +R S
Sbjct: 50  TAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTS 109
Query: 69  FEEI-YKFHRQILRVKDRDEFPMLMVGNKADL--DHQRQVSSMDAQNVARQLR-IPYIEC 124
           F+ I  K+  +I    D  +   ++VG K DL  D    V+  +  ++ ++L  + YIE 
Sbjct: 110 FDNISTKWEPEIKHYIDTAK--TVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEA 167
Query: 125 SAKVRINVDQAFHELVRIVL 144
           S+  +I +++ F + V  + 
Sbjct: 168 SSVAKIGLNEVFEKSVDCIF 187

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 50.8 bits (120), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 39/140 (27%), Positives = 71/140 (50%), Gaps = 6/140 (4%)
Query: 9   TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
           T Y PT+ ++++      +    L + DTAGQEE+  +R       +  LL F+V +R S
Sbjct: 49  TAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTS 108
Query: 69  FEEI-YKFHRQILRVKDRDEFPMLMVGNKADL--DHQRQVSSMDAQNVARQLR-IPYIEC 124
           F+ I  K+  +I    D  +   ++VG K DL  D    V+  +  ++ ++L  + YIE 
Sbjct: 109 FDNISTKWEPEIKHYIDTAK--TVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEA 166
Query: 125 SAKVRINVDQAFHELVRIVL 144
           S+  +I +++ F + V  + 
Sbjct: 167 SSVAKIGLNEVFEKSVDCIF 186

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 50.4 bits (119), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 41/152 (26%), Positives = 70/152 (46%), Gaps = 16/152 (10%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ ++Y     +D     L + DTAG E++  +R       +  L+ FS+   
Sbjct: 33  FPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSP 92
Query: 67  NSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADL---DHQRQ---------VSSMDAQNV 113
           +S E I  K+  ++         P+++VGNK DL   +H R+         V   + +++
Sbjct: 93  DSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDM 150
Query: 114 ARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
           A ++    Y+ECSAK +  V + F    R  L
Sbjct: 151 ANRIGAFGYMECSAKTKDGVREVFEMATRAAL 182

>pdb|2IWR|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 46.2 bits (108), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 66/145 (45%), Gaps = 14/145 (9%)
Query: 12  DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE 71
           + T  + Y K+ ++D     + I     +EE  A   ++    +  + VFS+ D NSF+ 
Sbjct: 36  EKTESEQYKKEMLVDGQTHLVLI-----REEAGAPDAKFSGWADAVIFVFSLEDENSFQA 90
Query: 72  IYKFHRQI--LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIEC 124
           + + H Q+  LR + R    + +VG +  +         DA+  AR L     R  Y E 
Sbjct: 91  VSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDAR--ARALXADMKRCSYYET 148
Query: 125 SAKVRINVDQAFHELVRIVLLHTKQ 149
            A   +NVD+ F E+ + V+   KQ
Sbjct: 149 XATYGLNVDRVFQEVAQKVVTLRKQ 173

>pdb|2BMJ|A Chain A, Gtpase Like Domain Of Centaurin Gamma 1 (Human) Length = 178

Iteration: 1
 Score = 46.2 bits (108), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 39/145 (26%), Positives = 66/145 (45%), Gaps = 14/145 (9%)
Query: 12  DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE 71
           + T  + Y K+ ++D     + I     +EE  A   ++    +  + VFS+ D NSF+ 
Sbjct: 36  EKTESEQYKKEMLVDGQTHLVLI-----REEAGAPDAKFSGWADAVIFVFSLEDENSFQA 90
Query: 72  IYKFHRQI--LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIEC 124
           + + H Q+  LR + R    + +VG +  +         DA+  AR L     R  Y E 
Sbjct: 91  VSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDAR--ARALCADMKRCSYYET 148
Query: 125 SAKVRINVDQAFHELVRIVLLHTKQ 149
            A   +NVD+ F E+ + V+   KQ
Sbjct: 149 CATYGLNVDRVFQEVAQKVVTLRKQ 173

>pdb|3IHW|A Chain A, Crystal Structure Of The Ras-Like Domain Of Centg3 Length = 184

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 34/134 (25%), Positives = 64/134 (47%), Gaps = 9/134 (6%)
Query: 19  YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ 78
           + K+ V+D     L I D  G  E      Q+    +  + VFS+ D  SF+ +Y +  +
Sbjct: 56  FKKEIVVDGQSYLLLIRDEGGPPEL-----QFAAWVDAVVFVFSLEDEISFQTVYNYFLR 110
Query: 79  ILRVKDRDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQA 135
           +   ++  E PM++VG +  +   + R +    A+ ++  L R  Y E  A   +NV++ 
Sbjct: 111 LCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERV 170
Query: 136 FHELV-RIVLLHTK 148
           F ++  ++V L  K
Sbjct: 171 FQDVAQKVVALRKK 184

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/137 (27%), Positives = 63/137 (45%), Gaps = 22/137 (16%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 32  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 91
Query: 67  NSFEEIYKFHRQILRVKDRDEF----PMLMVGNKADL-----------DHQRQVSSMD-A 110
            + + + K  +  ++     EF     ML+VG K+DL           +H++   S D  
Sbjct: 92  ETLDSVLKKWKGEIQ-----EFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG 146
Query: 111 QNVARQLRIP-YIECSA 126
            N+A+Q+    YIECSA
Sbjct: 147 ANMAKQIGAATYIECSA 163

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 43.5 bits (101), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 37/137 (27%), Positives = 63/137 (45%), Gaps = 22/137 (16%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 48  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 107
Query: 67  NSFEEIYKFHRQILRVKDRDEF----PMLMVGNKADL-----------DHQRQVSSMD-A 110
            + + + K  +  ++     EF     ML+VG K+DL           +H++   S D  
Sbjct: 108 ETLDSVLKKWKGEIQ-----EFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG 162
Query: 111 QNVARQLRIP-YIECSA 126
            N+A+Q+    YIECSA
Sbjct: 163 ANMAKQIGAATYIECSA 179

>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 = 43.1 bits (100), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 37/137 (27%), Positives = 63/137 (45%), Gaps = 22/137 (16%)
Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 53  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 112
Query: 67  NSFEEIYKFHRQILRVKDRDEF----PMLMVGNKADL-----------DHQRQVSSMD-A 110
            + + + K  +  ++     EF     ML+VG K+DL           +H++   S D  
Sbjct: 113 ETLDSVLKKWKGEIQ-----EFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG 167
Query: 111 QNVARQLRIP-YIECSA 126
            N+A+Q+    YIECSA
Sbjct: 168 ANMAKQIGAATYIECSA 184

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 40.4 bits (93), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 3/102 (2%)
Query: 28  IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE 87
           +   L +LDTAG + +     QY       +LVF V+   SFE    +   +   +   E
Sbjct: 71  VSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRE 130
Query: 88  FPM--LMVGNKADLDHQRQVSSMD-AQNVARQLRIPYIECSA 126
            P+  ++V NK DL  QR    +D AQ+ A    + + + SA
Sbjct: 131 RPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSA 172

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	159
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	5e-84
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-84
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	9e-84
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-83
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-83
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	4e-83
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	1e-82
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	1e-82
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	6e-82
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-81
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	3e-81
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	6e-81
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	7e-81
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	1e-80
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	6e-80
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	8e-79
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-78
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-78
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-77
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	1e-75
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	2e-73
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	6e-71
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-70
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	3e-61
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	2e-57
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-47
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	1e-42
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-41
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	5e-40
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-39
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	2e-38
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	9e-38
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-37
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-37
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-37
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-37
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-37
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	3e-37
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-37
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	4e-37
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	4e-37
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	7e-37
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	7e-37
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	9e-37
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-36
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-36
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	2e-36
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-36
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-36
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	2e-36
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	3e-36
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	3e-36
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-36
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	4e-36
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	6e-36
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	8e-36
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-35
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-35
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-35
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	2e-35
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	4e-35
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	6e-35
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	7e-35
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-34
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-34
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	2e-34
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	3e-34
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-34
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	8e-34
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-33
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	2e-33
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-33
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	2e-33
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-32
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	2e-32
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	5e-30
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	9e-30
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	7e-29
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-27
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-27
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	2e-26
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	3e-26
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	7e-24
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	3e-23
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	5e-21
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-13
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	1e-05
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-05
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	2e-05
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	3e-05
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	3e-05
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	6e-05
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	7e-05
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	1e-04
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	1e-04
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-04
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	3e-04
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	4e-04

>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 =  243 bits (624), Expect = 5e-84
 Identities = 94/141 (66%), Positives = 112/141 (79%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 30  IQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFA 89

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL+ QRQV   +A        + Y 
Sbjct: 90  INDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF 149

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK+R+NVD+AF +LVR V
Sbjct: 150 EASAKLRLNVDEAFEQLVRAV 170

>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 =  243 bits (623), Expect = 6e-84
 Identities = 72/147 (48%), Positives = 100/147 (68%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS
Sbjct: 39  MYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFS 98

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T+  SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+
Sbjct: 99  ITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYV 158

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R NVD+ F +L+R +     +
Sbjct: 159 ETSAKTRANVDKVFFDLMREIRARKME 185

>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 =  242 bits (620), Expect = 9e-84
 Identities = 61/139 (43%), Positives = 100/139 (71%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+  YDPTIED Y K+  +D  P+ L+ILDTAG E+F++MR+ Y+++G+GF+LV+S
Sbjct: 24  VTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYS 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + ++ SF++I     QI+RVK  ++ P+++VGNK DL+ +R+VSS + + +A +   P++
Sbjct: 84  LVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFM 143

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK +  VD+ F E+VR
Sbjct: 144 ETSAKSKTMVDELFAEIVR 162

>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 =  242 bits (620), Expect = 2e-83
 Identities = 47/141 (33%), Positives = 78/141 (55%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV  YDPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 27  VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 86

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 87  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 146

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK        F  ++   
Sbjct: 147 ESSAKENQTAVDVFRRIILEA 167

>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 =  241 bits (618), Expect = 2e-83
 Identities = 72/141 (51%), Positives = 99/141 (70%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS
Sbjct: 25  MYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFS 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T+  SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+
Sbjct: 85  ITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYV 144

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R NVD+ F +L+R +
Sbjct: 145 ETSAKTRANVDKVFFDLMREI 165

>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 (620), Expect = 4e-83
 Identities = 72/147 (48%), Positives = 100/147 (68%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS
Sbjct: 35  MYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFS 94

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T+  SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+
Sbjct: 95  ITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYV 154

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK R NVD+ F +L+R +     +
Sbjct: 155 ETSAKTRANVDKVFFDLMREIRARKME 181

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  241 bits (617), Expect = 1e-82
 Identities = 41/141 (29%), Positives = 82/141 (58%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  F   YDPT+E++Y+K   +      L ++DTAGQ+E+S +   ++    G++LV+S
Sbjct: 45  VEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYS 104

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT  +SF+ I   ++++     +   P+++VGNKADL  +R+V +++ + +A      ++
Sbjct: 105 VTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFM 164

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SA+        F ++++ +
Sbjct: 165 ESSARENQLTQGIFTKVIQEI 185

>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 =  239 bits (613), Expect = 1e-82
 Identities = 41/140 (29%), Positives = 69/140 (49%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
                      +Y +  V+D   A L + D   Q+    +    M  G+ +++V+SVTD+
Sbjct: 26  EDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDK 85

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE+  +   Q+ R +  D+ P+++VGNK+DL   R+VS  + +  A      +IE SA
Sbjct: 86  GSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSA 145

Query: 127 KVRINVDQAFHELVRIVLLH 146
            +  NV   F  +VR + L 
Sbjct: 146 ALHHNVQALFEGVVRQIRLR 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 =  238 bits (610), Expect = 6e-82
 Identities = 85/142 (59%), Positives = 109/142 (76%), Gaps = 1/142 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  FV DYDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+S
Sbjct: 39  FQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYS 98

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD+ SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYI
Sbjct: 99  VTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYI 158

Query: 123 ECSAKV-RINVDQAFHELVRIV 143
           E SAK   +NVD+ FH+LVR++
Sbjct: 159 ETSAKDPPLNVDKTFHDLVRVI 180

>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 =  237 bits (606), Expect = 2e-81
 Identities = 51/142 (35%), Positives = 80/142 (56%), Gaps = 1/142 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  F   Y PT+ED+Y +    D     L I DT G  +F AM+   +  G  F+LV+S
Sbjct: 24  VKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYS 83

Query: 63  VTDRNSFEEIYKFHRQILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           +T R S EE+   + QI  +K D +  P+++VGNK D    R+V S +A+ +AR  +  +
Sbjct: 84  ITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAF 143

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK+  NV + F EL+ + 
Sbjct: 144 METSAKLNHNVKELFQELLNLE 165

>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 =  236 bits (604), Expect = 3e-81
 Identities = 69/142 (48%), Positives = 101/142 (71%), Gaps = 1/142 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 24  VQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-LRIPY 121
           +T +++F ++     QILRVKD ++ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF 143

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK +INV++ F++LVR +
Sbjct: 144 LESSAKSKINVNEIFYDLVRQI 165

>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 =  236 bits (604), Expect = 6e-81
 Identities = 82/141 (58%), Positives = 105/141 (74%), Gaps = 1/141 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 25  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+ +  QI RVKD ++ PM++VGNK DL   R V +  AQ++AR   IP+I
Sbjct: 85  INNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFI 143

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R  VD AF+ LVR +
Sbjct: 144 ETSAKTRQGVDDAFYTLVREI 164

>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 =  235 bits (601), Expect = 7e-81
 Identities = 83/141 (58%), Positives = 106/141 (75%), Gaps = 1/141 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV + DPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK+DL   R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLA-ARTVESRQAQDLARSYGIPYI 142

Query: 123 ECSAKVRINVDQAFHELVRIV 143
           E SAK R  V+ AF+ LVR +
Sbjct: 143 ETSAKTRQGVEDAFYTLVREI 163

>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 =  235 bits (602), Expect = 1e-80
 Identities = 80/150 (53%), Positives = 104/150 (69%), Gaps = 1/150 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 42  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 101

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SF +I  +  QI RVKD D+ PM++VGNK DL   R V +  A  +A+   IP+I
Sbjct: 102 INNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDL-PTRTVDTKQAHELAKSYGIPFI 160

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQCKN 152
           E SAK R  V+ AF+ LVR +  +  +  N
Sbjct: 161 ETSAKTRQGVEDAFYTLVREIRQYRMKKLN 190

>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 =  233 bits (596), Expect = 6e-80
 Identities = 43/149 (28%), Positives = 73/149 (48%), Gaps = 2/149 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF--SAMREQYMRSGEGFLLV 60
                   ++   ED Y +   +D     L ++DT   E+   S  +E  ++ G  +++V
Sbjct: 25  AGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIV 84

Query: 61  FSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           +S+ DR SFE   +   Q+ R    D  P+++VGNKADL   R+VS  + +  A      
Sbjct: 85  YSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCK 144

Query: 121 YIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           +IE SA ++ NV + F  +VR + L  + 
Sbjct: 145 FIETSATLQHNVAELFEGVVRQLRLRRRD 173

>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 =  231 bits (591), Expect = 8e-79
 Identities = 42/149 (28%), Positives = 80/149 (53%), Gaps = 2/149 (1%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLV 60
                 + ++P   ED+Y ++ ++D     L + D   Q +    +R+  +++G+ FL+V
Sbjct: 44  GGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIV 103

Query: 61  FSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           FSVTDR SF ++ +   ++   +   + P+++VGNK+DL   R+VS  + +++A  L   
Sbjct: 104 FSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCK 163

Query: 121 YIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           +IE SA +  N  + F   VR + L   +
Sbjct: 164 HIETSAALHHNTRELFEGAVRQIRLRRGR 192

>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 =  230 bits (589), Expect = 1e-78
 Identities = 52/148 (35%), Positives = 84/148 (56%), Gaps = 2/148 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  F   Y PTIED+Y +    D     L I DT G  +F AM+   +  G  F+LVFS
Sbjct: 29  VKGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFS 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDR-DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           VT + S EE+   ++ I+++K   ++ P+++VGNK D   QR+V + +AQ VA++ +  +
Sbjct: 89  VTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDET-QREVDTREAQAVAQEWKCAF 147

Query: 122 IECSAKVRINVDQAFHELVRIVLLHTKQ 149
           +E SAK+  NV + F EL+ +       
Sbjct: 148 METSAKMNYNVKELFQELLTLETRRNMS 175

>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 = 2e-78
 Identities = 40/146 (27%), Positives = 77/146 (52%), Gaps = 2/146 (1%)

Query: 3   IESYFVTDYDPT-IEDSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLV 60
                   ++    ED+Y ++ ++D     L + D   Q +    +++  +++G+ FL+V
Sbjct: 23  GGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIV 82

Query: 61  FSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           FSVTDR SF ++ +   ++   +   + P+++VGNK+DL   R+VS  + +++A  L   
Sbjct: 83  FSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCK 142

Query: 121 YIECSAKVRINVDQAFHELVRIVLLH 146
           +IE SA +  N  + F   VR + L 
Sbjct: 143 HIETSAALHHNTRELFEGAVRQIRLR 168

>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 =  227 bits (582), Expect = 1e-77
 Identities = 62/142 (43%), Positives = 89/142 (62%), Gaps = 2/142 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+ +YDPT+E +Y  Q  IDD    ++ILDTAGQE+    RE +MR GEGF+LV+ 
Sbjct: 49  LTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDT-IQREGHMRWGEGFVLVYD 107

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TDR SFEE+      +  +K      +++VGNKADLDH RQVS+ + + +A +L   + 
Sbjct: 108 ITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFY 167

Query: 123 ECSAKV-RINVDQAFHELVRIV 143
           ECSA     N+ + F+EL R V
Sbjct: 168 ECSACTGEGNITEIFYELCREV 189

>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 =  223 bits (571), Expect = 1e-75
 Identities = 46/146 (31%), Positives = 81/146 (55%), Gaps = 5/146 (3%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
             +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+
Sbjct: 64  MDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSI 121

Query: 64  TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           TDR SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE
Sbjct: 122 TDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIE 181

Query: 124 CSAKVRINVDQAFHELVRIVLLHTKQ 149
            SA V+ NV + F  +VR V L    
Sbjct: 182 TSAAVQHNVKELFEGIVRQVRLRRDS 207

>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 =  217 bits (555), Expect = 2e-73
 Identities = 44/144 (30%), Positives = 74/144 (51%), Gaps = 4/144 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+++YDP +ED+Y+ +  +D  P  L ++DTA  +      E+Y+     FL+V+S
Sbjct: 42  LTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYS 100

Query: 63  VTDRNSFEEIYKFHRQI-LRVKDRDE-FPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           V  R SF+    +   + L  K+     P L++GNK D+   RQV+  +   +A +    
Sbjct: 101 VDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCL 160

Query: 121 YIECSAKVRI-NVDQAFHELVRIV 143
           + E SA +   +V   FHE VR  
Sbjct: 161 FFEVSACLDFEHVQHVFHEAVREA 184

>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 =  211 bits (538), Expect = 6e-71
 Identities = 46/146 (31%), Positives = 81/146 (55%), Gaps = 5/146 (3%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPA---RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
             +D +   ED+Y +  ++D   A    LD+ +  G+ E+  + +  M+ G+ +L+V+S+
Sbjct: 33  MDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSI 90

Query: 64  TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           TDR SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A      +IE
Sbjct: 91  TDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIE 150

Query: 124 CSAKVRINVDQAFHELVRIVLLHTKQ 149
            SA V+ NV + F  +VR V L    
Sbjct: 151 TSAAVQHNVKELFEGIVRQVRLRRDS 176

>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 =  208 bits (532), Expect = 4e-70
 Identities = 35/150 (23%), Positives = 69/150 (46%), Gaps = 9/150 (6%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   +V +  P     + K+ V+D     L I D  G  E      Q+    +  + VFS
Sbjct: 41  LTGTYVQEESPE-GGRFKKEIVVDGQSYLLLIRDEGGPPEL-----QFAAWVDAVVFVFS 94

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQL-RI 119
           + D  SF+ +Y +  ++   ++  E PM++VG +  +   + R +    A+ ++  L R 
Sbjct: 95  LEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRC 154

Query: 120 PYIECSAKVRINVDQAFHELVRIVLLHTKQ 149
            Y E  A   +NV++ F ++ + V+   K+
Sbjct: 155 TYYETCATYGLNVERVFQDVAQKVVALRKK 184

>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 =  185 bits (473), Expect = 3e-61
 Identities = 39/152 (25%), Positives = 69/152 (45%), Gaps = 14/152 (9%)

Query: 7   FVTD----YDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           F+T      + T  + Y K+ ++D     + I + AG  +      ++    +  + VFS
Sbjct: 27  FLTGSYQVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFS 81

Query: 63  VTDRNSFEEIYKFHRQI--LRVKDRDEFPMLMVG--NKADLDHQRQVSSMDAQNV-ARQL 117
           + D NSF+ + + H Q+  LR + R    + +VG  ++      R V    A+ + A   
Sbjct: 82  LEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMK 141

Query: 118 RIPYIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           R  Y E  A   +NVD+ F E+ + V+   KQ
Sbjct: 142 RCSYYETXATYGLNVDRVFQEVAQKVVTLRKQ 173

>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 =  177 bits (450), Expect = 2e-57
 Identities = 48/160 (30%), Positives = 82/160 (51%), Gaps = 10/160 (6%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             + F TDY PT+ D+++    +D     L + DTAGQE++S +R    R  + F+L FS
Sbjct: 30  TSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFS 89

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL--------DHQRQVSSMDAQNVA 114
           +  + S+E + K     LR +     P+++VG K DL        DH   ++S   + + 
Sbjct: 90  LISKASYENVLKKWMPELR-RFAPNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELR 148

Query: 115 RQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           +Q+    YIECS+K + NV   F   +++VL   ++ +  
Sbjct: 149 KQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRKEVP 188

>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 =  153 bits (388), Expect = 2e-47
 Identities = 31/149 (20%), Positives = 62/149 (41%), Gaps = 9/149 (6%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDI--PARLDILDTAGQEEFSAMREQYMRSG----EG 56
           I+      +  T    Y K+     +    +L    T          ++ M  G    +G
Sbjct: 106 IDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDG 165

Query: 57  FLLVFSVT--DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA 114
           FLL   V+     +F++  KF   +     + + P+++V  K D   +R +       ++
Sbjct: 166 FLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFALS 225

Query: 115 RQLRIPYIECSAKVRINVDQAFHELVRIV 143
           ++  +  +E SA+  +NVD AF  LV+++
Sbjct: 226 KK-NLQVVETSARSNVNVDLAFSTLVQLI 253

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  139 bits (352), Expect = 1e-42
 Identities = 42/160 (26%), Positives = 78/160 (48%), Gaps = 14/160 (8%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             + + T+Y PT  D+++    +D  P RL + DTAGQ+EF  +R     + + FLL FS
Sbjct: 41  TTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFS 100

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDA 110
           V   +SF+ + +     +R       P+++VG ++DL              ++ V    A
Sbjct: 101 VVSPSSFQNVSEKWVPEIRCHCPK-APIILVGTQSDLREDVKVLIELDKCKEKPVPEEAA 159

Query: 111 QNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           + +A +++   YIECSA  + N+ + F   +   + ++  
Sbjct: 160 KLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSDT 199

>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 =  137 bits (347), Expect = 1e-41
 Identities = 33/140 (23%), Positives = 64/140 (45%), Gaps = 3/140 (2%)

Query: 7   FVTDYDPTI--EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT 64
           F  +Y+ T+   +             + ++ DTAGQE+ + +++ Y     G +L F VT
Sbjct: 36  FEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVT 95

Query: 65  DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC 124
            R + + + ++ ++   V   +  P+++  NK D+ +++++S      V +     Y E 
Sbjct: 96  SRITCQNLARWVKEFQAVVGNE-APIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEI 154

Query: 125 SAKVRINVDQAFHELVRIVL 144
           SAK   N    F  L RI  
Sbjct: 155 SAKTAHNFGLPFLHLARIFT 174

>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 =  132 bits (334), Expect = 5e-40
 Identities = 40/149 (26%), Positives = 72/149 (48%), Gaps = 6/149 (4%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
             T Y PT+ ++++      +    L + DTAGQEE+  +R       +  LL F+V +R
Sbjct: 48  IPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNR 107

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL--DHQRQVSSMDAQNVARQLR-IPYI 122
            SF+ I  K+  +I    D      ++VG K DL  D    V+  +  ++ ++L  + YI
Sbjct: 108 TSFDNISTKWEPEIKHYIDT--AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYI 165

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQCK 151
           E S+  +I +++ F + V  +  +    K
Sbjct: 166 EASSVAKIGLNEVFEKSVDCIFSNKPVPK 194

>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 =  129 bits (328), Expect = 2e-39
 Identities = 48/139 (34%), Positives = 75/139 (53%), Gaps = 3/139 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  DY  TI  D   +Q  ++D   RL + DTAGQEEF A+ + Y R  +  +LVFS TD
Sbjct: 30  FTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD 89

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R SFE I  +  +++   +  + P  +V NK DL     + + +A+ +A++L++ +   S
Sbjct: 90  RESFEAISSWREKVVA--EVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTS 147

Query: 126 AKVRINVDQAFHELVRIVL 144
            K  +NV + F  L    L
Sbjct: 148 VKEDLNVSEVFKYLAEKHL 166

>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 =  128 bits (323), Expect = 2e-38
 Identities = 46/139 (33%), Positives = 68/139 (48%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  T+  D   K     D   +L I DTAGQE +  +   Y R   GFLL++ + +
Sbjct: 47  FTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIAN 106

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  +  +  QI      +   +L VGNK DL+ +R V + D + +A  L   + E S
Sbjct: 107 QESFAAVQDWATQIKTYSWDNAQVIL-VGNKCDLEDERVVPAEDGRRLADDLGFEFFEAS 165

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK  INV Q F  LV ++ 
Sbjct: 166 AKENINVKQVFERLVDVIC 184

>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 =  126 bits (320), Expect = 9e-38
 Identities = 46/139 (33%), Positives = 71/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +   Y  TI  D   +   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 58  YTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD 117

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  + ++ ++I R    +   +L VGNK DL  ++ V    A+  A  L IP++E S
Sbjct: 118 QESFNNVKQWLQEIDRYASENVNKLL-VGNKCDLTTKKVVDYTTAKEFADSLGIPFLETS 176

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV+Q+F  +   + 
Sbjct: 177 AKNATNVEQSFMTMAAEIK 195

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  126 bits (319), Expect = 1e-37
 Identities = 46/139 (33%), Positives = 71/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +   Y  TI  D   +   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 41  YTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD 100

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  + ++ ++I R    +   +L VGNK DL  ++ V    A+  A  L IP++E S
Sbjct: 101 QESFNNVKQWLQEIDRYASENVNKLL-VGNKCDLTTKKVVDYTTAKEFADSLGIPFLETS 159

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV+Q+F  +   + 
Sbjct: 160 AKNATNVEQSFMTMAAEIK 178

>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 =  126 bits (318), Expect = 1e-37
 Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  T+  D   K     +   +L I DTAGQE +  +   Y R   GF+L++ +T+
Sbjct: 48  FTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN 107

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF  +  +  QI      +   +L VGNK D++ +R V +   Q +A QL   + E S
Sbjct: 108 EESFNAVQDWATQIKTYSWDNAQVIL-VGNKCDMEEERVVPTEKGQLLAEQLGFDFFEAS 166

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK  I+V QAF  LV  + 
Sbjct: 167 AKENISVRQAFERLVDAIC 185

>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 =  126 bits (319), Expect = 1e-37
 Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  T+  D   K    +D   +L I DTAG E +  +   Y R   GF+L++ +T+
Sbjct: 33  FTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITN 92

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF  +  +  QI      +   +L VGNK D++ +R VSS   + +A  L   + E S
Sbjct: 93  EESFNAVQDWSTQIKTYSWDNAQVLL-VGNKCDMEDERVVSSERGRQLADHLGFEFFEAS 151

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK  INV Q F  LV ++ 
Sbjct: 152 AKDNINVKQTFERLVDVIC 170

>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 =  125 bits (317), Expect = 2e-37
 Identities = 48/139 (34%), Positives = 71/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F + +  TI  D   +   +D    +L I DTAGQE F  +   Y R   G +LV+ +T+
Sbjct: 33  FNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN 92

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF+ I  + R I      D   M+ +GNK D++ +RQVS    + +A    I ++E S
Sbjct: 93  EKSFDNIRNWIRNIEEHASADVEKMI-LGNKCDVNDKRQVSKERGEKLALDYGIKFMETS 151

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK  INV+ AF  L R + 
Sbjct: 152 AKANINVENAFFTLARDIK 170

>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 =  125 bits (316), Expect = 2e-37
 Identities = 54/143 (37%), Positives = 75/143 (52%), Gaps = 6/143 (4%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F T    TI  +   K   +D     + I DTAGQE F ++R  + R  +  LL FSV D
Sbjct: 32  FDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDD 91

Query: 66  RNSFEEIYKFHRQILR---VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPY 121
             SF+ +  + ++ +    VK+ + FP +++GNK D+   RQVS+ +AQ   R     PY
Sbjct: 92  SQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPY 150

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
            E SAK   NV  AF E VR VL
Sbjct: 151 FETSAKDATNVAAAFEEAVRRVL 173

>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 =  125 bits (317), Expect = 3e-37
 Identities = 49/142 (34%), Positives = 76/142 (53%), Gaps = 4/142 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  TK+ ++DD    + I DTAGQE F ++   + R  +  +LVF VT 
Sbjct: 33  FSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTA 92

Query: 66  RNSFEEIYKFHRQILR---VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
            N+F+ +  +  + L     +D + FP +++GNK DL++++  +         +  IPY 
Sbjct: 93  PNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYF 152

Query: 123 ECSAKVRINVDQAFHELVRIVL 144
           E SAK  INV+QAF  + R  L
Sbjct: 153 ETSAKEAINVEQAFQTIARNAL 174

>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 =  125 bits (317), Expect = 4e-37
 Identities = 44/159 (27%), Positives = 73/159 (45%), Gaps = 11/159 (6%)

Query: 7   FVTDYDPTI-----------EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGE 55
           F   +  T+                           L + DTAGQE F ++   + R   
Sbjct: 50  FNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAM 109

Query: 56  GFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR 115
           GFLL+F +T + SF  +  +  Q+      +   ++++GNKADL  QR+V+   A+ +A 
Sbjct: 110 GFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD 169

Query: 116 QLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNST 154
           +  IPY E SA    NV++A   L+ +++   +QC   T
Sbjct: 170 KYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEKT 208

>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 =  125 bits (315), Expect = 4e-37
 Identities = 43/139 (30%), Positives = 70/139 (50%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +D TI  +   +   ID    +L I DTAGQE F ++   Y R   G LLV+ +T 
Sbjct: 46  FQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR 105

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R +F  +  +     +    +   ML +GNK+DL+ +R V   + +  AR+  + ++E S
Sbjct: 106 RETFNHLTSWLEDARQHSSSNMVIML-IGNKSDLESRRDVKREEGEAFAREHGLIFMETS 164

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++AF    + + 
Sbjct: 165 AKTACNVEEAFINTAKEIY 183

>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 =  125 bits (316), Expect = 4e-37
 Identities = 47/139 (33%), Positives = 69/139 (49%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           +  DY  TI  D   K   +D    +L I DTAGQE F  +   Y R   G ++V+ VTD
Sbjct: 33  YTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD 92

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SF  +  + ++I R        +L VGNK DL  +R V    A+  A   ++P++E S
Sbjct: 93  QESFNGVKMWLQEIDRYATSTVLKLL-VGNKCDLKDKRVVEYDVAKEFADANKMPFLETS 151

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NV+ AF  + R + 
Sbjct: 152 ALDSTNVEDAFLTMARQIK 170

>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 =  125 bits (316), Expect = 7e-37
 Identities = 35/139 (25%), Positives = 72/139 (51%), Gaps = 5/139 (3%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  T+  + +      +  P + ++ DTAGQE+F  +R+ Y    +  +++F VT 
Sbjct: 40  FEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTS 99

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R +++ +  +HR ++RV   +  P+++ GNK D+  ++  +   +    R+  + Y + S
Sbjct: 100 RVTYKNVPNWHRDLVRV--CENIPIVLCGNKVDIKDRKVKA--KSIVFHRKKNLQYYDIS 155

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   N ++ F  L R ++
Sbjct: 156 AKSNYNFEKPFLWLARKLI 174

>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 =  124 bits (313), Expect = 7e-37
 Identities = 42/139 (30%), Positives = 72/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  D + TI  +  +K   +     +L I DTAGQE F ++   Y R   G LLV+ +T 
Sbjct: 35  FKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS 94

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R ++  +  +      +  ++   +L  GNK DLD  R+V+ ++A   A++  + ++E S
Sbjct: 95  RETYNALTNWLTDARMLASQNIVIIL-CGNKKDLDADREVTFLEASRFAQENELMFLETS 153

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NV++AF +  R +L
Sbjct: 154 ALTGENVEEAFVQCARKIL 172

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  123 bits (312), Expect = 9e-37
 Identities = 45/139 (32%), Positives = 70/139 (50%), Gaps = 3/139 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D   +   I+    +L I DTAGQE F  +   Y R   G ++V+ VT 
Sbjct: 34  FSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTS 93

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF  + ++  +I +    D+   ++VGNK D   ++ V + DA   A Q+ I   E S
Sbjct: 94  AESFVNVKRWLHEINQN--CDDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETS 151

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK  +NV++ F+ +  +VL
Sbjct: 152 AKENVNVEEMFNCITELVL 170

>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 =  123 bits (312), Expect = 1e-36
 Identities = 41/139 (29%), Positives = 71/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +   TI  +  T+   +D    +  I DTAGQE +  +   Y R   G LLV+ +  
Sbjct: 30  FNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAK 89

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             ++E + ++ +++    D +   ML VGNK+DL H R V + +A+  A +  + +IE S
Sbjct: 90  HLTYENVERWLKELRDHADSNIVIML-VGNKSDLRHLRAVPTDEARAFAEKNNLSFIETS 148

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NV++AF  ++  + 
Sbjct: 149 ALDSTNVEEAFKNILTEIY 167

>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 =  123 bits (311), Expect = 2e-36
 Identities = 46/139 (33%), Positives = 71/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +   TI  D   K   +D   A+L I DTAGQE F  +   Y R  +G +LV+ VT 
Sbjct: 40  FDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR 99

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R++F ++  +  ++     R++   ++VGNK D    R+V   +    AR+  + +IE S
Sbjct: 100 RDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDK-ENREVDRNEGLKFARKHSMLFIEAS 158

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK    V  AF ELV  ++
Sbjct: 159 AKTCDGVQCAFEELVEKII 177

>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 =  123 bits (312), Expect = 2e-36
 Identities = 44/139 (31%), Positives = 69/139 (49%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F      TI  D   K   I+    +L I DTAGQE F ++ + Y RS    +L + +T 
Sbjct: 51  FPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITC 110

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF  + ++ R+I +        +L VGNK DL  +R+VS   A+  +    + Y+E S
Sbjct: 111 EESFRCLPEWLREIEQYASNKVITVL-VGNKIDLAERREVSQQRAEEFSEAQDMYYLETS 169

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++ F +L   ++
Sbjct: 170 AKESDNVEKLFLDLACRLI 188

>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 =  123 bits (312), Expect = 2e-36
 Identities = 41/139 (29%), Positives = 72/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  D + TI  +  ++   +     +L I DTAGQE F ++   Y R   G LLV+ +T 
Sbjct: 50  FKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS 109

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R ++  +  +      +   +   +L  GNK DLD +R+V+ ++A   A++  + ++E S
Sbjct: 110 RETYNSLAAWLTDARTLASPNIVVIL-CGNKKDLDPEREVTFLEASRFAQENELMFLETS 168

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NV++AF +  R +L
Sbjct: 169 ALTGENVEEAFLKCARTIL 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 =  123 bits (310), Expect = 2e-36
 Identities = 43/139 (30%), Positives = 73/139 (52%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F+ D   TI  +  T+   +     +L I DTAGQE F A+   Y R   G L+V+ +T 
Sbjct: 40  FMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR 99

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           R+++  +  +      + + +   +L +GNKADL+ QR V+  +A+  A +  + ++E S
Sbjct: 100 RSTYNHLSSWLTDARNLTNPNTVIIL-IGNKADLEAQRDVTYEEAKQFAEENGLLFLEAS 158

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV+ AF E  + + 
Sbjct: 159 AKTGENVEDAFLEAAKKIY 177

>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 =  123 bits (310), Expect = 2e-36
 Identities = 39/139 (28%), Positives = 69/139 (49%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  D   TI  +  T+  ++     +  I DTAG E + A+   Y R   G LLVF +T 
Sbjct: 50  FSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTK 109

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             ++  + ++ +++    +     ML VGNK+DL   R+V + +A+  A    + ++E S
Sbjct: 110 HQTYAVVERWLKELYDHAEATIVVML-VGNKSDLSQAREVPTEEARMFAENNGLLFLETS 168

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NV+ AF  +++ + 
Sbjct: 169 ALDSTNVELAFETVLKEIF 187

>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 =  122 bits (309), Expect = 3e-36
 Identities = 44/154 (28%), Positives = 79/154 (51%), Gaps = 14/154 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             + F TDY PT+ D+++   V++     L + DTAGQE+++ +R    R  + F+L FS
Sbjct: 29  TSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFS 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDR-DEFPMLMVGNKADL----------DHQRQVSSMDAQ 111
           +  + S+E +    + I  +K      P+++VG K DL               ++++  +
Sbjct: 89  LISKASYENVS--KKWIPELKHYAPGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGE 146

Query: 112 NVARQLRIP-YIECSAKVRINVDQAFHELVRIVL 144
            + + +  P YIECS+K + NV   F   +R+VL
Sbjct: 147 ELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL 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 =  123 bits (310), Expect = 3e-36
 Identities = 41/149 (27%), Positives = 70/149 (46%), Gaps = 11/149 (7%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPA----------RLDILDTAGQEEFSAMREQYMRSGE 55
           F + +  T+  D   K+ V                 L + DTAG E F ++   + R   
Sbjct: 36  FNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAM 95

Query: 56  GFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR 115
           GFLL+F +T+  SF  +  +  Q+      +   +++ GNK+DL+ QR V   +A+ +A 
Sbjct: 96  GFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAE 155

Query: 116 QLRIPYIECSAKVRINVDQAFHELVRIVL 144
           +  IPY E SA    N+  A   L+ +++
Sbjct: 156 KYGIPYFETSAANGTNISHAIEMLLDLIM 184

>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 =  122 bits (309), Expect = 3e-36
 Identities = 53/145 (36%), Positives = 78/145 (53%), Gaps = 7/145 (4%)

Query: 7   FVTDYDPTI-EDSYTKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT 64
           +   Y  TI  D  TK+  +D D  A + + DTAGQE F ++   + R  +  +LV+ VT
Sbjct: 33  YSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVT 92

Query: 65  DRNSFEEIYKFHRQILR---VKDRDEFPMLMVGNKADLDH-QRQVSSMDAQNVARQL-RI 119
           + +SFE I  +  + L    V   + FP +++GNK D +  ++ VS   AQ +A+ L  I
Sbjct: 93  NASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDI 152

Query: 120 PYIECSAKVRINVDQAFHELVRIVL 144
           P    SAK  INVD AF E+ R  L
Sbjct: 153 PLFLTSAKNAINVDTAFEEIARSAL 177

>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 =  122 bits (308), Expect = 4e-36
 Identities = 44/141 (31%), Positives = 74/141 (52%), Gaps = 2/141 (1%)

Query: 5   SYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
           ++    +  T+  D   K   +D +  +L + DTAGQE F ++   Y R     LL++ V
Sbjct: 34  AFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDV 93

Query: 64  TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIE 123
           T++ SF+ I  +  +I      D   ML +GNK D  H+R V   D + +A++  +P++E
Sbjct: 94  TNKASFDNIQAWLTEIHEYAQHDVALML-LGNKVDSAHERVVKREDGEKLAKEYGLPFME 152

Query: 124 CSAKVRINVDQAFHELVRIVL 144
            SAK  +NVD AF  + + + 
Sbjct: 153 TSAKTGLNVDLAFTAIAKELK 173

>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 =  121 bits (306), Expect = 6e-36
 Identities = 36/142 (25%), Positives = 66/142 (46%), Gaps = 4/142 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT 64
           F   Y  TI  D + ++  +   +   L I D  GQ     M ++Y+   +G LLV+ +T
Sbjct: 31  FGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDIT 90

Query: 65  DRNSFEEIYKFHRQILRV-KDRDEFPMLM-VGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +  SFE +  ++  + +V ++ +  P++  VGNK DL+H R +         ++      
Sbjct: 91  NYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSH 150

Query: 123 ECSAKVRINVDQAFHELVRIVL 144
             SAK   +V   F ++   +L
Sbjct: 151 FVSAKTGDSVFLCFQKVAAEIL 172

>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 =  121 bits (305), Expect = 8e-36
 Identities = 45/139 (32%), Positives = 74/139 (53%), Gaps = 3/139 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  TI  D   K   I+    +L I DTAGQE F  +   Y R   G +LV+ +TD
Sbjct: 28  FNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD 87

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             +F  I ++ + +    + +   +L VGNK+D+   R V++   + +A++L IP+IE S
Sbjct: 88  ERTFTNIKQWFKTVNEHANDEAQLLL-VGNKSDM-ETRVVTADQGEALAKELGIPFIESS 145

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++ F  L +++ 
Sbjct: 146 AKNDDNVNEIFFTLAKLIQ 164

>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 =  122 bits (307), Expect = 1e-35
 Identities = 45/139 (32%), Positives = 74/139 (53%), Gaps = 3/139 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  TI  D   K   I+    +L + DTAGQE F  +   Y R   G +LV+ VTD
Sbjct: 45  FNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTD 104

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             +F  I ++ + +    + +   +L VGNK+D+   R V++   + +A++L IP+IE S
Sbjct: 105 ERTFTNIKQWFKTVNEHANDEAQLLL-VGNKSDM-ETRVVTADQGEALAKELGIPFIESS 162

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK   NV++ F  L +++ 
Sbjct: 163 AKNDDNVNEIFFTLAKLIQ 181

>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 =  121 bits (306), Expect = 1e-35
 Identities = 45/140 (32%), Positives = 75/140 (53%), Gaps = 3/140 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F      T+  D   K   +     RL I DTAGQE F+++   Y RS +G +LV+ +T 
Sbjct: 51  FCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITK 110

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIEC 124
           + +F+++ K+ + I +    D   +L VGNK D +  R+++    +  A+Q+  + + E 
Sbjct: 111 KETFDDLPKWMKMIDKYASEDAELLL-VGNKLDCETDREITRQQGEKFAQQITGMRFCEA 169

Query: 125 SAKVRINVDQAFHELVRIVL 144
           SAK   NVD+ F +LV  +L
Sbjct: 170 SAKDNFNVDEIFLKLVDDIL 189

>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 =  121 bits (306), Expect = 1e-35
 Identities = 43/164 (26%), Positives = 71/164 (43%), Gaps = 16/164 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS
Sbjct: 46  SKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFS 105

Query: 63  VTDRNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDH------------QRQVSSMD 109
           V   +S E I  K+  ++         P+++V NK DL              Q  V + D
Sbjct: 106 VDSPDSLENIPEKWVPEVK--HFCPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDD 163

Query: 110 AQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTKQCKN 152
            + +A +++   Y+ECSAK +  V + F    R  L      +N
Sbjct: 164 GRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKRYGSQN 207

>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 =  120 bits (303), Expect = 2e-35
 Identities = 41/138 (29%), Positives = 70/138 (50%), Gaps = 2/138 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +   TI  +  T+   +D    +  I DTAG E + A+   Y R   G LLV+ +  
Sbjct: 54  FNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAK 113

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             ++E + ++ +++    D +   ML VGNK+DL H R V + +A+  A +  + +IE S
Sbjct: 114 HLTYENVERWLKELRDHADSNIVIML-VGNKSDLRHLRAVPTDEARAFAEKNGLSFIETS 172

Query: 126 AKVRINVDQAFHELVRIV 143
           A    NV+ AF  ++  +
Sbjct: 173 ALDSTNVEAAFQTILTEI 190

>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 =  120 bits (302), Expect = 4e-35
 Identities = 41/145 (28%), Positives = 66/145 (45%), Gaps = 5/145 (3%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLVFSVT 64
           F    + TI  D   +   ID    ++ + DTAGQE F  +M + Y R+    + V+ +T
Sbjct: 45  FPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT 104

Query: 65  DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC 124
           +  SF  +  +  +  +    ++ P ++VGNK DL    QV +  AQ  A    +P  E 
Sbjct: 105 NMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFET 164

Query: 125 SAKVR---INVDQAFHELVRIVLLH 146
           SAK      +V+  F  L   +  H
Sbjct: 165 SAKNPNDNDHVEAIFMTLAHKLKSH 189

>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 =  119 bits (301), Expect = 6e-35
 Identities = 46/140 (32%), Positives = 70/140 (50%), Gaps = 3/140 (2%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F      TI  D   K   I     +L I DTAGQE F  + + Y RS  G +L + +T 
Sbjct: 54  FSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITK 113

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIEC 124
           R+SF  +  +   + +    +   +L +GNK+DL   R+VS  +AQ++A    I   IE 
Sbjct: 114 RSSFLSVPHWIEDVRKYAGSNIVQLL-IGNKSDLSELREVSLAEAQSLAEHYDILCAIET 172

Query: 125 SAKVRINVDQAFHELVRIVL 144
           SAK   NV++AF  +   ++
Sbjct: 173 SAKDSSNVEEAFLRVATELI 192

>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 =  119 bits (300), Expect = 7e-35
 Identities = 37/156 (23%), Positives = 68/156 (43%), Gaps = 16/156 (10%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
               F  +Y PT+ D Y     +      L + DTAGQE++  +R       + FL+ FS
Sbjct: 39  ANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFS 98

Query: 63  VTDRNSFEEIYKFHRQILRVKDR-DEFPMLMVGNKADL------------DHQRQVSSMD 109
           V +  SF+ + +    +  +K+     P L++G + DL              ++ +    
Sbjct: 99  VVNPASFQNVKE--EWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQ 156

Query: 110 AQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
            Q +A+++    Y+ECSA  +  +   F E +  +L
Sbjct: 157 GQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 192

>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 =  119 bits (301), Expect = 1e-34
 Identities = 42/139 (30%), Positives = 72/139 (51%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  D   TI  +  T+   I+    +  I DTAGQE + A+   Y R   G L+V+ ++ 
Sbjct: 38  FNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISK 97

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            +S+E    +  ++    D +    L +GNK+DL H R V + +++  A++ ++ + E S
Sbjct: 98  SSSYENCNHWLSELRENADDNVAVGL-IGNKSDLAHLRAVPTEESKTFAQENQLLFTETS 156

Query: 126 AKVRINVDQAFHELVRIVL 144
           A    NVD+AF EL+  + 
Sbjct: 157 ALNSENVDKAFEELINTIY 175

>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 =  118 bits (298), Expect = 2e-34
 Identities = 44/145 (30%), Positives = 64/145 (44%), Gaps = 8/145 (5%)

Query: 7   FVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +   T+  D   K  ++D     L + DTAGQE F ++ + Y R  +G LL++ VT 
Sbjct: 53  FRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTC 112

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH------QRQVSSMDAQNVARQLRI 119
             SF  I ++   I          ML VGNKAD+        Q+ V     + +A     
Sbjct: 113 EKSFLNIREWVDMIEDAAHETVPIML-VGNKADIRDTAATEGQKCVPGHFGEKLAMTYGA 171

Query: 120 PYIECSAKVRINVDQAFHELVRIVL 144
            + E SAK   N+ +A   L R V 
Sbjct: 172 LFCETSAKDGSNIVEAVLHLAREVK 196

>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 =  117 bits (295), Expect = 2e-34
 Identities = 40/139 (28%), Positives = 73/139 (52%), Gaps = 2/139 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   +  T+     TK+  I      L I DTAGQE F A+   Y R   G +LV+ +TD
Sbjct: 31  FNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITD 90

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            +SF+++  + +++ ++   +    + VGNK DL+ +R VS  +A++ A  +   +   S
Sbjct: 91  EDSFQKVKNWVKELRKMLGNEICLCI-VGNKIDLEKERHVSIQEAESYAESVGAKHYHTS 149

Query: 126 AKVRINVDQAFHELVRIVL 144
           AK    +++ F +L + ++
Sbjct: 150 AKQNKGIEELFLDLCKRMI 168

>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 =  117 bits (295), Expect = 3e-34
 Identities = 48/136 (35%), Positives = 73/136 (53%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAGQE F ++   Y+R     ++V+ +T+
Sbjct: 39  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN 98

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF +  K+   +   +  D   ML VGNK DL  +RQVS+ + +  A++L + +IE S
Sbjct: 99  TNSFHQTSKWIDDVRTERGSDVIIML-VGNKTDLSDKRQVSTEEGERKAKELNVMFIETS 157

Query: 126 AKVRINVDQAFHELVR 141
           AK   NV Q F  +  
Sbjct: 158 AKAGYNVKQLFRRVAA 173

>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 =  118 bits (297), Expect = 3e-34
 Identities = 47/136 (34%), Positives = 72/136 (52%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F   Y  TI  D  +K   ++D   RL + DTAG E F ++   Y+R     ++V+ +T+
Sbjct: 41  FDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITN 100

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
            NSF++  K+   +   +  D   ML VGNK DL  +RQVS  + +  A++L + +IE S
Sbjct: 101 VNSFQQTTKWIDDVRTERGSDVIIML-VGNKTDLADKRQVSIEEGERKAKELNVMFIETS 159

Query: 126 AKVRINVDQAFHELVR 141
           AK   NV Q F  +  
Sbjct: 160 AKAGYNVKQLFRRVAA 175

>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 =  117 bits (294), Expect = 8e-34
 Identities = 41/152 (26%), Positives = 73/152 (48%), Gaps = 16/152 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       + FL+ FS+   
Sbjct: 55  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSP 114

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
            SFE +  K++ ++         P+++VG K DL                 ++      +
Sbjct: 115 ASFENVRAKWYPEVR--HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 172

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 173 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>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 =  115 bits (291), Expect = 1e-33
 Identities = 39/136 (28%), Positives = 70/136 (51%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F    + TI     T+   +DD   + +I DTAGQE + ++   Y R  +  ++V+ +T+
Sbjct: 31  FHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITN 90

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             SF     + +++ R    +    L  GNKADL ++R V   +AQ+ A    + ++E S
Sbjct: 91  EESFARAKNWVKELQRQASPNIVIAL-SGNKADLANKRAVDFQEAQSYADDNSLLFMETS 149

Query: 126 AKVRINVDQAFHELVR 141
           AK  +NV++ F  + +
Sbjct: 150 AKTSMNVNEIFMAIAK 165

>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 =  115 bits (291), Expect = 2e-33
 Identities = 39/136 (28%), Positives = 65/136 (47%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  +  PTI     TK     +   +  I DTAGQE F ++   Y R     ++V+ +T 
Sbjct: 48  FDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITK 107

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           ++SF  + K+ +++      +    +  GNK DL   R+V   DA+  A  +    +E S
Sbjct: 108 QDSFYTLKKWVKELKEHGPENIVMAI-AGNKCDLSDIREVPLKDAKEYAESIGAIVVETS 166

Query: 126 AKVRINVDQAFHELVR 141
           AK  IN+++ F  + R
Sbjct: 167 AKNAINIEELFQGISR 182

>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 =  114 bits (289), Expect = 2e-33
 Identities = 39/136 (28%), Positives = 65/136 (47%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  + +PTI     TK     +   +  I DTAG E F A+   Y R     ++V+ +T 
Sbjct: 31  FDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITK 90

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
             +F  +  + R++ +         +  GNK DL   R+V   DA++ A  +   ++E S
Sbjct: 91  EETFSTLKNWVRELRQHGPPSIVVAI-AGNKCDLTDVREVMERDAKDYADSIHAIFVETS 149

Query: 126 AKVRINVDQAFHELVR 141
           AK  IN+++ F E+ R
Sbjct: 150 AKNAININELFIEISR 165

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  116 bits (292), Expect = 2e-33
 Identities = 37/145 (25%), Positives = 57/145 (39%), Gaps = 7/145 (4%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDI--LDTAGQEEFSAMREQYMRSGEGFLLVFSV 63
           F+ DY  T   +       I D    +++  LDTAG + +     QY       +LVF V
Sbjct: 47  FLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDV 106

Query: 64  TDRNSFEEIYKFHRQILRVKDRDE--FPMLMVGNKADLDHQR-QVSSMDAQNVARQLRIP 120
           +   SFE    +   +   +   E     ++V NK DL  QR QV    AQ+ A    + 
Sbjct: 107 SSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLD 166

Query: 121 YIECSAKV-RINVDQAFHELVRIVL 144
           + + SA     + D  F  +     
Sbjct: 167 FFDVSANPPGKDADAPFLSIATTFY 191

>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 =  113 bits (285), Expect = 1e-32
 Identities = 43/136 (31%), Positives = 76/136 (55%), Gaps = 2/136 (1%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           FV   + TI    +++   ++D   + +I DTAGQE + ++   Y R     ++VF VT+
Sbjct: 37  FVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTN 96

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS 125
           + SFE   K+ +++    + +    L  GNK+DL   R+V++ DAQ  A++  + ++E S
Sbjct: 97  QASFERAKKWVQELQAQGNPNMVMAL-AGNKSDLLDARKVTAEDAQTYAQENGLFFMETS 155

Query: 126 AKVRINVDQAFHELVR 141
           AK   NV + F+E+ R
Sbjct: 156 AKTATNVKEIFYEIAR 171

>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 =  114 bits (286), Expect = 2e-32
 Identities = 43/157 (27%), Positives = 71/157 (45%), Gaps = 16/157 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F   Y PT+ + Y     +   P  L I DTAGQ+++  +R  +       LL F VT  
Sbjct: 59  FPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSP 118

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
           NSF+ I  +++ ++       + P+++VG K DL            +    V+    Q +
Sbjct: 119 NSFDNIFNRWYPEVNH--FCKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEM 176

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           AR +  + Y+ECSA++  NV   F E   + L    +
Sbjct: 177 ARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSRGR 213

>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 =  107 bits (268), Expect = 5e-30
 Identities = 42/156 (26%), Positives = 70/156 (44%), Gaps = 16/156 (10%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  F   Y PT+ ++Y     +D     L + DTAGQE++  +R       +  L+ FS
Sbjct: 46  SKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFS 105

Query: 63  VTDRNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMD 109
           +   +S E I  K+  ++         P+++VGNK DL              Q  V S +
Sbjct: 106 IDSPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEE 163

Query: 110 AQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
            +++A ++    Y+ECSAK +  V + F    R  L
Sbjct: 164 GRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL 199

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  106 bits (267), Expect = 9e-30
 Identities = 31/130 (23%), Positives = 61/130 (46%), Gaps = 4/130 (3%)

Query: 12  DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE 71
           +  I  +       +    + DI DTAGQE ++++   Y R     ++VF +++ N+ + 
Sbjct: 75  NNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDR 134

Query: 72  IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRIN 131
              +  Q+   K    + +++V NK D +   QV  ++ Q  A+   + +I+ SAK   N
Sbjct: 135 AKTWVNQL---KISSNYIIILVANKIDKNK-FQVDILEVQKYAQDNNLLFIQTSAKTGTN 190

Query: 132 VDQAFHELVR 141
           +   F+ L  
Sbjct: 191 IKNIFYMLAE 200

>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 =  103 bits (259), Expect = 7e-29
 Identities = 40/153 (26%), Positives = 63/153 (41%), Gaps = 17/153 (11%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 32  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 91

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
            + + +  K+  +I          ML+VG K+DL              Q  VS     N+
Sbjct: 92  ETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANM 149

Query: 114 ARQLR-IPYIECSAKVRIN-VDQAFHELVRIVL 144
           A+Q+    YIECSA    N V   FH      +
Sbjct: 150 AKQIGAATYIECSALQSENSVRDIFHVATLACV 182

>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 =  100 bits (251), Expect = 1e-27
 Identities = 40/152 (26%), Positives = 72/152 (47%), Gaps = 16/152 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS+   
Sbjct: 30  FPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSP 89

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
            SFE +  K++ ++         P+++VG K DL                 ++      +
Sbjct: 90  ASFENVRAKWYPEVRH--HCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAM 147

Query: 114 ARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 148 AKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

>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 =  100 bits (250), Expect = 3e-27
 Identities = 40/153 (26%), Positives = 63/153 (41%), Gaps = 17/153 (11%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F ++  
Sbjct: 53  FPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRP 112

Query: 67  NSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
            + + +  K+  +I          ML+VG K+DL              Q  VS     N+
Sbjct: 113 ETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANM 170

Query: 114 ARQLR-IPYIECSAKVRIN-VDQAFHELVRIVL 144
           A+Q+    YIECSA    N V   FH      +
Sbjct: 171 AKQIGAATYIECSALQSENSVRDIFHVATLACV 203

>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 = 98.0 bits (244), Expect = 2e-26
 Identities = 32/162 (19%), Positives = 59/162 (36%), Gaps = 17/162 (10%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
           +   Y PT+ ++YT     ++    L + DT+G   +  +R       +  LL F ++  
Sbjct: 52  YPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRP 111

Query: 67  NSFEEIYK-FHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDAQNV 113
            + +   K +  +IL         +L++G K DL              Q  +S      +
Sbjct: 112 ETVDSALKKWRTEILDY--CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAI 169

Query: 114 ARQLR-IPYIECSAKVR-INVDQAFHELVRIVLLHTKQCKNS 153
           A+QL    Y+E SA     ++   F     + L         
Sbjct: 170 AKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKPSPLPQK 211

>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 = 96.4 bits (240), Expect = 3e-26
 Identities = 38/139 (27%), Positives = 72/139 (51%), Gaps = 5/139 (3%)

Query: 7   FVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
           F  + +PTI     T++  I++   + +I DTAGQE F+++   Y R+ +  L+V+ VT 
Sbjct: 28  FAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTK 87

Query: 66  RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH---QRQVSSMDAQNVARQLRIPYI 122
             SF +   + +++     +D   + +VGNK D      +R+V+  + + +A +  + + 
Sbjct: 88  PQSFIKARHWVKELHEQASKD-IIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFF 146

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK   NV+  F  +  
Sbjct: 147 ETSAKTGENVNDVFLGIGE 165

>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 = 93.9 bits (233), Expect = 7e-24
 Identities = 39/157 (24%), Positives = 71/157 (45%), Gaps = 24/157 (15%)

Query: 6   YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
            F  +Y PT+ D+Y+   ++D  P  L + DTAG E++  +R       + FL+ FS+  
Sbjct: 179 AFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVS 238

Query: 66  RNSFEEI-YKFHRQILRVKDRDEF----PMLMVGNKADL------------DHQRQVSSM 108
             SF  +  K++ ++             P+++VG K DL                 ++  
Sbjct: 239 PASFHHVRAKWYPEVR------HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYP 292

Query: 109 DAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
               +A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 293 QGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 329

>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 = 89.0 bits (221), Expect = 3e-23
 Identities = 27/149 (18%), Positives = 56/149 (37%), Gaps = 17/149 (11%)

Query: 10  DYDPTIE-DSYTKQCVIDDIPAR---LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD 65
               T+  D       I D   R   L++ D AG+EEF +    +M     +L V+ ++ 
Sbjct: 32  MQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSK 91

Query: 66  RNS-FEEIYKFHRQILRVKDR-DEFPMLMVGNKADLDHQRQ---VSSMDAQNVARQLRIP 120
             +  + +  +   I   K R    P+++VG   D+  ++Q     S   + +  +   P
Sbjct: 92  GQAEVDAMKPWLFNI---KARASSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFP 148

Query: 121 YI-----ECSAKVRINVDQAFHELVRIVL 144
            I       + +    + +    ++   L
Sbjct: 149 AIRDYHFVNATEESDALAKLRKTIINESL 177

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 87.7 bits (217), Expect = 5e-21
 Identities = 21/131 (16%), Positives = 42/131 (32%), Gaps = 5/131 (3%)

Query: 14  TIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY 73
              +    +   +         D  GQE   A  + +M     ++L+    D  +    +
Sbjct: 82  QAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLL---DSRTDSNKH 138

Query: 74  KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVD 133
            + R I +     + P+++V NK D +    +           +   +   S K    V+
Sbjct: 139 YWLRHIEKY--GGKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVE 196

Query: 134 QAFHELVRIVL 144
                L   VL
Sbjct: 197 SIAKSLKSAVL 207

>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 = 64.0 bits (156), Expect = 2e-13
 Identities = 23/133 (17%), Positives = 45/133 (33%), Gaps = 13/133 (9%)

Query: 25  IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK- 83
           +     R  +    GQ  ++A R+  +R  +G + V                     +  
Sbjct: 69  VKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAE 128

Query: 84  ---DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL----RIPYIECSAKVRINVDQAF 136
                D+ P+++  NK DL       ++  + V   +    + P +E  A     V +  
Sbjct: 129 YGLTLDDVPIVIQVNKRDLPD-----ALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETL 183

Query: 137 HELVRIVLLHTKQ 149
            E+ R+VL     
Sbjct: 184 KEVSRLVLARVAG 196

>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 = 41.8 bits (99), Expect = 1e-05
 Identities = 20/121 (16%), Positives = 45/121 (37%), Gaps = 13/121 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
              + D  GQ++   +   Y ++ +G + V    DR    E  +   ++L   +  +  +
Sbjct: 45  SFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVL 104

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRI 142
           L+  NK DL +     +M+A  +  +L +  +           A     + +    L   
Sbjct: 105 LVFANKQDLPN-----AMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQ 159

Query: 143 V 143
           +
Sbjct: 160 L 160

>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 = 41.9 bits (99), Expect = 2e-05
 Identities = 23/119 (19%), Positives = 44/119 (36%), Gaps = 13/119 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           R  + D  GQE   +    Y  + E  ++V   TDR       +   ++L  +D  +  +
Sbjct: 61  RFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGL 120

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVR 141
           L+  NK D+        M    +++ L++  I         C A     + Q    ++ 
Sbjct: 121 LIFANKQDVKE-----CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS 174

>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 = 41.9 bits (99), Expect = 2e-05
 Identities = 18/121 (14%), Positives = 45/121 (37%), Gaps = 13/121 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
              + D  GQ++   +   Y ++ +G + V    DR   +E     +++L+  +  +  +
Sbjct: 74  CFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVL 133

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRI 142
           L+  NK D+ +     +M    +  +L + ++           A     +      L   
Sbjct: 134 LVFANKQDMPN-----AMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHE 188

Query: 143 V 143
           +
Sbjct: 189 L 189

>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 = 41.1 bits (97), Expect = 3e-05
 Identities = 20/121 (16%), Positives = 45/121 (37%), Gaps = 13/121 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L++ D  GQ         Y       + V   TD++      K    +L+ ++  +  +
Sbjct: 63  KLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAAL 122

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRI 142
           L+  NK D        ++ A  V+++L +  +          SA     + +    L+ +
Sbjct: 123 LVFANKQDQPG-----ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDV 177

Query: 143 V 143
           +
Sbjct: 178 I 178

>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* Length = 476

 Score = 41.8 bits (99), Expect = 3e-05
 Identities = 26/156 (16%), Positives = 44/156 (28%), Gaps = 32/156 (20%)

Query: 14  TIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMRE--------------QYMRSGEGFLL 59
            IE+      + D    R  + DTAG      +RE                M   +  L 
Sbjct: 271 YIEE----CFIHDKTMFR--LTDTAG------LREAGEEIEHEGIRRSRMKMAEADLILY 318

Query: 60  VFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI 119
           +  +      +E+ +                L V NK D       +    + +A     
Sbjct: 319 LLDLGTERLDDELTEIRELKAAHPAA---KFLTVANKLDRA---ANADALIRAIADGTGT 372

Query: 120 PYIECSAKVRINVDQAFHELVRIVLLHTKQCKNSTV 155
             I  SA     +D     +  +V    K  + S +
Sbjct: 373 EVIGISALNGDGIDTLKQHMGDLVKNLDKLHEASVL 408

>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 = 40.2 bits (95), Expect = 6e-05
 Identities = 20/116 (17%), Positives = 42/116 (36%), Gaps = 13/116 (11%)

Query: 36  DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN 95
           D  G          Y  + +  + V    DR+           +L  ++  +  +++  N
Sbjct: 57  DLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFAN 116

Query: 96  KADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRIV 143
           K D++      +M +  +A  L +P +        + SA     +D+A   LV  +
Sbjct: 117 KQDMEQ-----AMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 167

>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 = 40.3 bits (95), Expect = 7e-05
 Identities = 23/121 (19%), Positives = 45/121 (37%), Gaps = 13/121 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L+I D  GQ+   +    Y  S +G + V    DR   ++  +  + +L  +      +
Sbjct: 63  KLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATL 122

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRI 142
           L+  NK DL       ++    +   L +  I         CSA    ++      L+  
Sbjct: 123 LIFANKQDLPG-----ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDD 177

Query: 143 V 143
           +
Sbjct: 178 I 178

>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 = 39.5 bits (93), Expect = 1e-04
 Identities = 23/118 (19%), Positives = 44/118 (37%), Gaps = 13/118 (11%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           R  + D  GQE   +    Y  + E  ++V   TDR       +   ++L  +D  +  +
Sbjct: 66  RFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGL 125

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELV 140
           L+  NK D+        M    +++ L++  I         C A     + Q    ++
Sbjct: 126 LIFANKQDVKE-----CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMM 178

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 39.5 bits (93), Expect = 1e-04
 Identities = 22/116 (18%), Positives = 38/116 (32%), Gaps = 13/116 (11%)

Query: 36  DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN 95
           D  GQ         Y    +  + V   TDR+           +L   +  +  +L+  N
Sbjct: 72  DLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFAN 131

Query: 96  KADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRIV 143
           K DL       +     +A QL +  I        + S+K    + +    LV  +
Sbjct: 132 KQDLPD-----AASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERL 182

>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 = 39.1 bits (92), Expect = 2e-04
 Identities = 26/115 (22%), Positives = 46/115 (40%), Gaps = 15/115 (13%)

Query: 36  DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYK-FHRQILRVKDRDEFPMLMVG 94
           D  GQ  F +M E+Y R     + +    D+   E      H  +L        P+L++G
Sbjct: 73  DIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHN-LLDKPQLQGIPVLVLG 131

Query: 95  NKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVR 141
           NK DL       ++D + +  ++ +  I          S K + N+D     L++
Sbjct: 132 NKRDLPG-----ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQ 181

>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 = 38.3 bits (90), Expect = 3e-04
 Identities = 27/121 (22%), Positives = 46/121 (38%), Gaps = 13/121 (10%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM 90
           +L++ D  GQ +       Y  + +  + V    DR  FEE  +   ++L  +     P+
Sbjct: 61  KLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPV 120

Query: 91  LMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELVRI 142
           L+  NK DL       +  A  +A  L +  I         CSA     V    + + + 
Sbjct: 121 LIFANKQDLLT-----AAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN 175

Query: 143 V 143
           V
Sbjct: 176 V 176

>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 = 38.0 bits (89), Expect = 4e-04
 Identities = 22/123 (17%), Positives = 42/123 (34%), Gaps = 15/123 (12%)

Query: 31  RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD--RDEF 88
              + D +GQ  +  + E Y + G+  + V   +DR       +    +L   D      
Sbjct: 68  SFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRI 127

Query: 89  PMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI--------ECSAKVRINVDQAFHELV 140
           P+L   NK DL       ++ +  V++ L +  I           A     + +    L 
Sbjct: 128 PILFFANKMDLRD-----AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQ 182

Query: 141 RIV 143
             +
Sbjct: 183 DQI 185

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	159
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.97
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.97
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.97
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.97
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.97
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.97
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.96
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.96
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.96
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.96
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.96
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.96
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.96
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.96
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.96
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.96
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.96
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.96
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.96
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.96
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.96
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.96
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.96
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.96
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.96
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.96
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.96
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.96
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.96
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.96
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.96
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.96
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.96
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.96
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.96
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.96
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.96
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.96
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.96
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.96
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.96
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.96
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.96
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.96
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.96
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.96
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.96
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.96
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.96
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.95
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.95
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.95
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.95
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.95
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.95
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.95
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.95
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.95
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.95
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.95
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.95
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.95
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.95
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.95
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.95
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.95
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.95
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.95
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.95
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.95
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.95
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.95
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.95
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.94
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.94
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.94
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.94
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.94
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.93
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.93
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.87
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.92
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.92
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.92
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.92
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.92
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.92
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.92
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.91
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.91
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.91
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.91
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.91
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.91
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.91
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.9
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.9
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.9
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.9
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.9
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.9
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.89
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.89
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.89
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.88
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.88
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.88
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.88
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.87
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.86
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.85
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.85
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.83
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.83
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.83
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.83
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.81
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.8
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.8
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.8
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.79
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.79
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.78
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.78
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.77
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.77
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.74
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.74
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.74
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.74
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.72
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.72
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.71
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.7
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.7
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.7
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.69
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.69
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.69
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.68
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.68
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.65
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.65
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.64
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.63
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.61
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.6
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.6
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.59
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.58
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.57
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.56
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.56
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.56
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.55
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.55
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.55
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.55
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.53
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.53
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.52
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.52
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.5
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.5
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.49
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.49
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.48
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.47
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.46
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.45
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.45
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.45
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.43
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.4
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.37
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.37
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.36
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.33
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.31
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.3
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.29
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.28
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.27
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.25
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.24
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.22
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.2
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.18
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.15
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.15
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.11
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.1
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.01
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.0
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.99
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	98.99
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.98
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.96
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.94
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.94
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.92
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.87
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.85
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.8
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	98.77
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.75
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	98.73
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.67
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.54
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.53
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.46
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.4
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.21
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.21
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	97.58
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	97.49
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.13
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	96.1
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.8
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.16
3end_A	307	Light-independent protochlorophyllide reductase ir	94.77
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.36
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.93
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	93.49
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	92.97
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	92.92
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	92.9
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	91.4
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	91.28
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	91.1
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	90.3
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	89.76
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	89.44
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	87.79
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	87.6
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	85.66
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	85.15
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	84.62
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	83.15
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	82.97
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	80.79
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	80.59

>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=1.1e-35  Score=208.17  Aligned_cols=144  Identities=30%  Similarity=0.472  Sum_probs=123.6

Q ss_pred             cccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|.++|.||++.. +.+.+.+++..++++||||+|+++|.++++.|+++++++++|||+++++||+.+..|+..+.
T Consensus        33 ~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~  112 (216)
T 4dkx_A           33 FMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVR  112 (216)
T ss_dssp             HHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHHHHHHHHHHHHH
Confidence            46789999999999955 48888899999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .... +++|++|||||+|+.+.+.++.+++.++|++++++++||||++|.||+++|+.|++.+...
T Consensus       113 ~~~~-~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~  177 (216)
T 4dkx_A          113 TERG-SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM  177 (216)
T ss_dssp             HHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC---
T ss_pred             HhcC-CCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            7764 6799999999999999899999999999999999999999999999999999999887643

>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=99.97  E-value=7e-30  Score=173.36  Aligned_cols=150  Identities=32%  Similarity=0.554  Sum_probs=131.8

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  106 (181)
T 3t5g_A           27 VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDM  106 (181)
T ss_dssp             HHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HcCCCCCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35678899999999888888899999999999999999999888899999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCC
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKN  152 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~  152 (159)
                      ....++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+.......
T Consensus       107 ~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~~~~  176 (181)
T 3t5g_A          107 VGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQ  176 (181)
T ss_dssp             C----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHTC-----C
T ss_pred             cCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHHhcCCccc
Confidence            6656899999999999988889999999999999999999999999999999999999999877655443

>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=99.97  E-value=4.4e-29  Score=169.71  Aligned_cols=143  Identities=59%  Similarity=0.954  Sum_probs=132.7

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        39 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  118 (183)
T 3kkq_A           39 FQKIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRV  118 (183)
T ss_dssp             HHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             HhCCCCCCCCCCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35678889999999888888899999999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC-CCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK-VRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~-~~~~i~~~~~~l~~~~~~  145 (159)
                      ....++|+++|+||+|+.+.+.++.+++..+++.++++++++||+ +|.|++++|+++.+.+.+
T Consensus       119 ~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          119 KDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             cCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            666789999999999998888899999999999999999999999 999999999999998865

>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=99.97  E-value=5.4e-29  Score=168.55  Aligned_cols=148  Identities=64%  Similarity=1.011  Sum_probs=133.5

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|..++.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+.+.
T Consensus        30 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  109 (181)
T 2fn4_A           30 IQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRV  109 (181)
T ss_dssp             HHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HhCcCccccCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHh
Confidence            35678889999999888888889999999999999999999999999999999999999999999999999999998776


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ....++|+++|+||+|+.+.+.++.+++..++...+++++++||++|.|++++|+++.+.+.+.....
T Consensus       110 ~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~~~  177 (181)
T 2fn4_A          110 KDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQE  177 (181)
T ss_dssp             HTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTTC-
T ss_pred             cCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHhhccC
Confidence            55568899999999999887888888999999999999999999999999999999999998766443

>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=99.97  E-value=1e-28  Score=170.68  Aligned_cols=144  Identities=50%  Similarity=0.816  Sum_probs=132.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||+++.+...+.+++..+.+.+||+||++++..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        36 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~  115 (206)
T 2bov_A           36 YDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVK  115 (206)
T ss_dssp             HSCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHT
T ss_pred             hCCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45688899999998888888889999999999999999999999999999999999999999999999999999998876


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+.+
T Consensus       116 ~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          116 EDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             TCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHcc
Confidence            5568999999999999887888899999999999999999999999999999999999987754

>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=99.97  E-value=1.3e-28  Score=164.62  Aligned_cols=142  Identities=51%  Similarity=0.824  Sum_probs=127.8

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||++..+...+.+++..+.+.+||+||++++..++..+++++|++++|||++++++++.+..|+..+....
T Consensus        26 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  105 (168)
T 1u8z_A           26 YDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVK  105 (168)
T ss_dssp             HSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHH
T ss_pred             hCccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45678889999998888788889999999999999999999999999999999999999999999999999999998887


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...++|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++.+.+.+
T Consensus       106 ~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          106 EDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             CCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            65689999999999998877888899999999999999999999999999999999998764

>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=99.97  E-value=8.6e-29  Score=171.18  Aligned_cols=145  Identities=31%  Similarity=0.464  Sum_probs=122.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||++|++++..++..+++++|++|+|||++++++++.+..|+..+..
T Consensus        50 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~  129 (201)
T 2hup_A           50 KTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRK  129 (201)
T ss_dssp             HHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHH
T ss_pred             hhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35667788899998655 78888899989999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .++|+++|+||+|+.+.+.++.+++.++++.+++ +++++||++|.|++++|+++++.+.+...
T Consensus       130 ~~~-~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          130 YAG-SNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             hcC-CCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            653 5789999999999988788889999999999999 89999999999999999999999976543

>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=99.96  E-value=3.1e-29  Score=170.44  Aligned_cols=147  Identities=31%  Similarity=0.515  Sum_probs=112.9

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+..
T Consensus        29 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  108 (183)
T 2fu5_C           29 SEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEE  108 (183)
T ss_dssp             -------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35667778889998665 67788899999999999999999998889999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ... .++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+...+.
T Consensus       109 ~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~~~~  176 (183)
T 2fu5_C          109 HAS-ADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKN  176 (183)
T ss_dssp             HSC-TTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHHHHH
T ss_pred             hcC-CCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhcc
Confidence            643 57899999999999887888889999999999999999999999999999999999988765443

>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=99.96  E-value=3.8e-29  Score=171.10  Aligned_cols=142  Identities=30%  Similarity=0.518  Sum_probs=124.6

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+.+.||+++.+...+.+++..+.+++|||+|++++..+ ..+++++|++++|||++++++++.+..|+..+...
T Consensus        42 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~  120 (187)
T 3c5c_A           42 LTKRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALH  120 (187)
T ss_dssp             HHSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCcccCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            45678899999999888778888999999999999999998775 67899999999999999999999999999998876


Q ss_pred             cC--CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCC-CCCCCHHHHHHHHHHHHHh
Q psy11289         83 KD--RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA-KVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa-~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  ..++|+++|+||+|+.+.+.++.+++..+++.++++++++|| ++|.|++++|+++++.+.+
T Consensus       121 ~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          121 AKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             HHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             hhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHHHHHHHHHhh
Confidence            42  247899999999999887889999999999999999999999 8999999999999998754

>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=99.96  E-value=9.4e-29  Score=165.35  Aligned_cols=142  Identities=49%  Similarity=0.833  Sum_probs=129.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+.+.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        24 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  103 (167)
T 1c1y_A           24 VQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRV  103 (167)
T ss_dssp             HHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             HcCCCCCCCCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35678888999999888878888988999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+.|+++|+||+|+.+.+.++.+++..+++.+ +++++++||++|.|++++|+++.+.+.
T Consensus       104 ~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          104 KDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             hCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            65568999999999999887888888999999988 789999999999999999999998763

>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=99.96  E-value=2.9e-28  Score=165.76  Aligned_cols=144  Identities=50%  Similarity=0.816  Sum_probs=132.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||++..+...+.+++..+.+.+||+||++++..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        40 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  119 (187)
T 2a9k_A           40 YDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVK  119 (187)
T ss_dssp             HSCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhc
Confidence            45688889999998888888889999999999999999999999999999999999999999999999999999998887


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+.+
T Consensus       120 ~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          120 EDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             CCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            6568999999999999887788888999999999999999999999999999999999987654

>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=99.96  E-value=1.8e-29  Score=176.22  Aligned_cols=145  Identities=21%  Similarity=0.357  Sum_probs=127.8

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH-HHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE-IYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~-~~~~~~~i~~   81 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||++|++++..++..+++++|++|+|||+++++++.. +..|+..+..
T Consensus        48 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~  127 (214)
T 3q3j_B           48 AKDCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILD  127 (214)
T ss_dssp             HHSCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHH
T ss_pred             hcCCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHH
Confidence            467788999999998888888889999999999999999999999999999999999999999999999 6899999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCC-HHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRIN-VDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~-i~~~~~~l~~~~~~~~  147 (159)
                      ..  .++|+++|+||+|+.+.            +.++.+++..+++.+++ ++++|||++|.| ++++|+++++.+....
T Consensus       128 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          128 YC--PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             HC--TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             hC--CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhccC
Confidence            75  67899999999999753            67889999999999999 899999999998 9999999999988665


Q ss_pred             cc
Q psy11289        148 KQ  149 (159)
Q Consensus       148 ~~  149 (159)
                      ..
T Consensus       206 ~~  207 (214)
T 3q3j_B          206 SP  207 (214)
T ss_dssp             --
T ss_pred             cC
Confidence            44

>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=99.96  E-value=2.2e-28  Score=167.04  Aligned_cols=140  Identities=24%  Similarity=0.480  Sum_probs=123.4

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.|| +..+.+.+.+++..+.+++|||+|++++.     +++++|++++|||++++++++.+..|+..+...
T Consensus        41 ~~~~~~~~~~~t-~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~  114 (184)
T 3ihw_A           41 LTGTYVQEESPE-GGRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSF  114 (184)
T ss_dssp             HHSSCCCCCCTT-CEEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTT
T ss_pred             hcCCCCCCcCCC-cceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            467788888898 44567888999999999999999999875     788999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCC--CcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         83 KDRDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ....++|+++|+||+|+.  ..+.++.+++..+++.++ +++++|||++|.|++++|+++++.+.+.+.
T Consensus       115 ~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          115 RNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             SCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             cCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHHhc
Confidence            544678999999999993  567788999999999997 899999999999999999999999887653

>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=99.96  E-value=2.1e-28  Score=163.37  Aligned_cols=143  Identities=43%  Similarity=0.787  Sum_probs=130.7

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||+||++++..++..+++++|++++|||++++.+++.+..|+..+...
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~  103 (167)
T 1kao_A           24 VTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRV  103 (167)
T ss_dssp             HHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HcCCCcccCCCCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHh
Confidence            35678888999999888888889999999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ....+.|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+
T Consensus       104 ~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          104 KRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             TTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            655689999999999998778888889999999999999999999999999999999988754

>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=99.96  E-value=1.6e-28  Score=169.98  Aligned_cols=145  Identities=29%  Similarity=0.463  Sum_probs=130.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++|||+|++++..++..+++++|++++|||++++++++.+..|+..+..
T Consensus        47 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~  126 (201)
T 2ew1_A           47 TQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQ  126 (201)
T ss_dssp             HHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35677888899998555 77888999999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++++.+.+...
T Consensus       127 ~~~-~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          127 YAS-NKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEAR  192 (201)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             hcC-CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            653 578999999999998778888889999999999999999999999999999999999886543

>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=99.96  E-value=1.1e-28  Score=169.53  Aligned_cols=145  Identities=26%  Similarity=0.431  Sum_probs=130.1

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+...+.+++..+.+++|||||++++..++..+++++|++++|||++++++++.+ ..|+..+..
T Consensus        44 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  123 (194)
T 3reg_A           44 SKGEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKH  123 (194)
T ss_dssp             HHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            4567888999999998888888999999999999999999999999999999999999999999999997 678888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc--CCCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ--RQVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~--~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ..  .++|+++|+||+|+.+.  +.+..+++..+++.++++ ++++||++|.|++++|+++++.+.+.+..
T Consensus       124 ~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  192 (194)
T 3reg_A          124 YI--DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNKPV  192 (194)
T ss_dssp             HC--TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCSCC-
T ss_pred             hC--CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhcCCC
Confidence            64  67899999999999753  678889999999999998 99999999999999999999999876543

>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=99.96  E-value=5.4e-28  Score=166.52  Aligned_cols=139  Identities=29%  Similarity=0.497  Sum_probs=121.8

Q ss_pred             cccccc-ceEEEEEEECCeeEEEEEEeCCCcccchH-HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289         11 YDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus        11 ~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      +.|+++ +.+...+.+++..+.+++||++|++++.. ++..+++++|++|+|||++++++|..+..|+..+.......++
T Consensus        52 ~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~  131 (195)
T 3cbq_A           52 HEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDL  131 (195)
T ss_dssp             GTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCC
T ss_pred             CCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC
Confidence            445555 55677888999999999999999998765 7888999999999999999999999999999998876544578


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      |+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+.+...+
T Consensus       132 piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~~~~  192 (195)
T 3cbq_A          132 PVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGR  192 (195)
T ss_dssp             CEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHTTC--
T ss_pred             CEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHHhcCC
Confidence            9999999999988788889999999999999999999999999999999999998765543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.96  E-value=4.8e-28  Score=166.13  Aligned_cols=148  Identities=30%  Similarity=0.510  Sum_probs=131.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||++++.+++.+..|+..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  116 (196)
T 3tkl_A           37 ADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR  116 (196)
T ss_dssp             HHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35677788889998555 78888899999999999999999999999999999999999999999999999999999888


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      ... .+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|+++.+.+.+......
T Consensus       117 ~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~~~~  185 (196)
T 3tkl_A          117 YAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGA  185 (196)
T ss_dssp             HSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHHC----
T ss_pred             hcC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHHhcccc
Confidence            754 578999999999998888899999999999999999999999999999999999999988776543

>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=99.96  E-value=3.2e-28  Score=167.46  Aligned_cols=144  Identities=43%  Similarity=0.705  Sum_probs=131.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||+++ ...+..+++++|++++|||++++++++.+..|+..+...
T Consensus        49 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~  127 (196)
T 2atv_A           49 LTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEI  127 (196)
T ss_dssp             HHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             HhCCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            3567888899999988888888899999999999999988 778899999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCC-CHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI-NVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~l~~~~~~~~  147 (159)
                      ....++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|. |++++|+++++.+.+..
T Consensus       128 ~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~~  193 (196)
T 2atv_A          128 KKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRR  193 (196)
T ss_dssp             HTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             hCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhhc
Confidence            655689999999999998878888999999999999999999999999 99999999999987654

>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=99.96  E-value=3.9e-28  Score=165.45  Aligned_cols=144  Identities=58%  Similarity=0.896  Sum_probs=128.3

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        25 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  104 (189)
T 4dsu_A           25 IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRV  104 (189)
T ss_dssp             HHSSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            35678889999999888888899999999999999999999999999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ....+.|+++|+||+|+.+ +....+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       105 ~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  168 (189)
T 4dsu_A          105 KDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHK  168 (189)
T ss_dssp             TTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhh
Confidence            7667899999999999974 566788899999999999999999999999999999999887554

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.96  E-value=3.3e-29  Score=174.28  Aligned_cols=146  Identities=31%  Similarity=0.587  Sum_probs=125.6

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|..++.||+++.+...+.+++..+.+++||+||+++|..++..+++++|++++|||++++++++.+. .|+..+..
T Consensus        30 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~  109 (212)
T 2j0v_A           30 TSNKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRR  109 (212)
T ss_dssp             HHSCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCccCCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            45678889999999888888888999999999999999999999999999999999999999999999997 89998887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCC--------CCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQ--------VSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ..  +++|+++|+||+|+.+.+.        ++.+++..+++.+++ +++++||++|.|++++|+++++.+.+.....
T Consensus       110 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~  185 (212)
T 2j0v_A          110 FA--PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRK  185 (212)
T ss_dssp             HC--TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC----
T ss_pred             hC--CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhhhhhc
Confidence            64  5789999999999865443        478888999999996 8999999999999999999999998765443

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.96  E-value=1.8e-28  Score=169.10  Aligned_cols=144  Identities=30%  Similarity=0.507  Sum_probs=122.3

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||++|++++..++..+++++|++++|||+++++++..+. .|+..+..
T Consensus        41 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  120 (201)
T 2q3h_A           41 TTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRC  120 (201)
T ss_dssp             HC--------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HhCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            35668889999999888888889999999999999999999988999999999999999999999999997 79988887


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..  .++|+++|+||+|+.+            .+.++.+++..+++.+++ ++++|||++|.|++++|+++++.+.+...
T Consensus       121 ~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          121 HC--PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             HC--SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             hC--CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            65  5789999999999965            356788889999999997 89999999999999999999999886653

>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=99.96  E-value=4.2e-28  Score=162.23  Aligned_cols=138  Identities=30%  Similarity=0.460  Sum_probs=104.7

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ....|+.+..+...+.+++..+.+++||++|++++..++..+++++|++++|||++++++++.+..|+..+.......++
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~  107 (166)
T 3q72_A           28 GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDV  107 (166)
T ss_dssp             --------CEEEEEEEETTEEEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CC
T ss_pred             cCCCCccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC
Confidence            35567777777778888999999999999999999999999999999999999999999999999999999886555689


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      |+++|+||+|+.+.+.++.+++..++...+++++++||++|.|++++|+++.+.+.++
T Consensus       108 p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          108 PIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             CEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             CEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            9999999999988888999999999999999999999999999999999999988764

>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=99.96  E-value=2.6e-28  Score=167.51  Aligned_cols=141  Identities=26%  Similarity=0.486  Sum_probs=126.9

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|.+++.||+++.+...+.+++..+.+++||+||++++..++..+++++|++++|||+++++++..+. .|+..+..
T Consensus        39 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  118 (194)
T 2atx_A           39 ANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKE  118 (194)
T ss_dssp             HHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            35678889999999888888888998899999999999999999999999999999999999999999997 79988887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .++|+++|+||+|+.+.            +.++.+++..+++.+++ +++++||++|.|++++|+++++.++.
T Consensus       119 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          119 YA--PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             HS--TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             hC--CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            64  57899999999999653            46888899999999997 89999999999999999999998764

>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=99.96  E-value=4.1e-28  Score=166.26  Aligned_cols=145  Identities=28%  Similarity=0.491  Sum_probs=125.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+..
T Consensus        42 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~  121 (191)
T 2a5j_A           42 TDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ  121 (191)
T ss_dssp             HHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             hcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            34567778889988665 67788899999999999999999998999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++++.+.++..
T Consensus       122 ~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  187 (191)
T 2a5j_A          122 HSS-SNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQ  187 (191)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             hcC-CCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            643 578999999999998778888889999999999999999999999999999999999987653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.96  E-value=4.2e-29  Score=172.57  Aligned_cols=151  Identities=27%  Similarity=0.502  Sum_probs=126.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        45 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  124 (201)
T 3oes_A           45 VEGEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEG  124 (201)
T ss_dssp             HHSCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-
T ss_pred             HhCCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHh
Confidence            45678889999999888777788888899999999999999988999999999999999999999999999999999887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCCCC
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS  153 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~~~  153 (159)
                      ....++|+++|+||+|+.+.+.++..++..+++.++++++++||++|.|++++|+++.+.+.+.......+
T Consensus       125 ~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~~~~~~~~  195 (201)
T 3oes_A          125 HGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYGQE  195 (201)
T ss_dssp             ----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC-------
T ss_pred             cCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhhhhhhccc
Confidence            65568899999999999888889999999999999999999999999999999999999998777654433

>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=99.96  E-value=1.1e-27  Score=161.90  Aligned_cols=142  Identities=30%  Similarity=0.503  Sum_probs=127.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|||++++.+++.+..|+..+..
T Consensus        36 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  115 (179)
T 1z0f_A           36 TEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARN  115 (179)
T ss_dssp             HHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHH
Confidence            34667888899999665 77788899999999999999999999999999999999999999999999999999998887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++.++++.++++++++||++|.|++++|+++++.+.+
T Consensus       116 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          116 LTN-PNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             hcC-CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            653 578999999999998778888889999999999999999999999999999999988754

>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=99.96  E-value=9.8e-28  Score=162.36  Aligned_cols=140  Identities=24%  Similarity=0.456  Sum_probs=120.5

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+ +.||+++.+.+.+.+++..+.+++||++|+++     ..+++++|++++|||++++++++.+..|+..+...
T Consensus        28 ~~~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~  101 (178)
T 2iwr_A           28 LTGSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSL  101 (178)
T ss_dssp             HHSCCCC-CSSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCC-cCCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHH
Confidence            3566766 88999988888889999999999999999987     46788999999999999999999999987766665


Q ss_pred             cC--CCCCcEEEEEeCCCCC--CcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         83 KD--RDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..  ..++|+++|+||+|+.  ..+.++.+++..+++.. +++++++||++|.|++++|+++++.+.+...
T Consensus       102 ~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          102 RGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRK  172 (178)
T ss_dssp             HCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             HhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHHHHHHh
Confidence            43  2478999999999994  45678888999999887 6899999999999999999999999876553

>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=99.96  E-value=1.2e-27  Score=162.85  Aligned_cols=146  Identities=29%  Similarity=0.486  Sum_probs=130.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++++++.+..|+..+..
T Consensus        31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  110 (186)
T 2bme_A           31 IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARM  110 (186)
T ss_dssp             HHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            34667788889998555 77788899989999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ... .+.|+++|+||+|+.+.+.++..++..+++..+++++++||++|.|++++|+++.+.+.+....
T Consensus       111 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~  177 (186)
T 2bme_A          111 LAS-QNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIES  177 (186)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHS
T ss_pred             hcC-CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHhhh
Confidence            653 5789999999999987788888899999999999999999999999999999999999876544

>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=99.96  E-value=1.5e-27  Score=161.58  Aligned_cols=143  Identities=30%  Similarity=0.482  Sum_probs=126.7

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++.+++.+..|+..+...
T Consensus        34 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  113 (181)
T 2efe_B           34 KDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQ  113 (181)
T ss_dssp             HCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4567777889998655 777888999999999999999999999999999999999999999999999999999998887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. ++.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++.+.+.+..
T Consensus       114 ~~-~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (181)
T 2efe_B          114 GN-PNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQ  177 (181)
T ss_dssp             SC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC---
T ss_pred             cC-CCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            53 57899999999999877888889999999999999999999999999999999998775543

>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=99.96  E-value=1e-27  Score=167.19  Aligned_cols=143  Identities=31%  Similarity=0.502  Sum_probs=119.7

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCccc-chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE-FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      ..|.+.++|+..+.+.+.+.+++..+.+.+|||+|++. +..+...+++.++++++|||++++++|+.+..|+..+....
T Consensus        62 ~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~  141 (211)
T 2g3y_A           62 DSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRAR  141 (211)
T ss_dssp             CTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSG
T ss_pred             CCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHh
Confidence            44566666544465688888999999999999999987 45566777889999999999999999999999988887643


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...++|+++||||+|+.+.+.++.+++..++..+++++++|||++|.||+++|+++++.+....
T Consensus       142 ~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~~~  205 (211)
T 2g3y_A          142 QTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR  205 (211)
T ss_dssp             GGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            3357899999999999877888888888999999999999999999999999999999886543

>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=99.96  E-value=1.4e-27  Score=160.18  Aligned_cols=141  Identities=28%  Similarity=0.434  Sum_probs=113.3

Q ss_pred             ccccccccccc-ceEEEEEEECCeeEEEEEEeCCCcccchH-HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          6 YFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         6 ~f~~~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+...+.++.+ +.+...+.+++..+.+.+||++|++++.. ++..+++++|++++|||++++++++.+..|+..+....
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~  105 (169)
T 3q85_A           26 QGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGR  105 (169)
T ss_dssp             ------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHS
T ss_pred             cCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcc
Confidence            34444444444 55578888999999999999999998876 77788999999999999999999999999999998876


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++++.+..+
T Consensus       106 ~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          106 PHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             TTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            555899999999999988888999999999999999999999999999999999999988764

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.96  E-value=8.1e-28  Score=162.74  Aligned_cols=146  Identities=31%  Similarity=0.475  Sum_probs=128.8

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++++|||++++.++..+..|+..+..
T Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  109 (181)
T 3tw8_B           30 ADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQ  109 (181)
T ss_dssp             CSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            34567778889988555 78888899999999999999999998999999999999999999999999999999999987


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ..  .+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++.+.+.+...+.
T Consensus       110 ~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~~  176 (181)
T 3tw8_B          110 NC--DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDN  176 (181)
T ss_dssp             HC--TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHHHHHH
T ss_pred             hC--CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHhhhh
Confidence            65  57899999999999888888889999999999999999999999999999999999988766443

>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=99.96  E-value=2.2e-27  Score=159.92  Aligned_cols=142  Identities=30%  Similarity=0.440  Sum_probs=113.5

Q ss_pred             cccccccccccc-ceEEEEEEECCeeEEEEEEeCCCccc--chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          5 SYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEE--FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         5 ~~f~~~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~--~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+...+ ++++ +.+...+.+++..+.+++||++|+++  +..+...+++.+|++++|||++++++++.+..|+..+..
T Consensus        27 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~  105 (175)
T 2nzj_A           27 KQERDLH-EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRR  105 (175)
T ss_dssp             C-----C-CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             CCCcccc-CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            3444333 4555 44577888899999999999999988  566778889999999999999999999999999988887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .....++|+++|+||+|+.+.+.++.+++..++..++++++++||++|.|++++|+++.+.+.+.+
T Consensus       106 ~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  171 (175)
T 2nzj_A          106 THQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRR  171 (175)
T ss_dssp             CC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            644457899999999999887888888899999999999999999999999999999999987654

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.96  E-value=8.2e-28  Score=162.54  Aligned_cols=145  Identities=24%  Similarity=0.367  Sum_probs=125.3

Q ss_pred             ccccccccccccccc-eEEEEEEECC-eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIED-SYTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~-~~~~~~~~~~-~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|.+.+.||++. .+...+.+++ ..+.+++||+||++++..++..+++++|++++|||++++++++.+..|+..+.
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~  106 (178)
T 2hxs_A           27 AQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVK  106 (178)
T ss_dssp             HGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            355677788999984 4577888876 67889999999999999999999999999999999999999999999998887


Q ss_pred             hhcC-CCCCc-EEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKD-RDEFP-MLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~-~~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .... ..+.| +++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       107 ~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  175 (178)
T 2hxs_A          107 KVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIK  175 (178)
T ss_dssp             HHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHTTCC
T ss_pred             HHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            7531 12345 7899999999887888888999999999999999999999999999999999886554

>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=99.96  E-value=3.7e-28  Score=166.49  Aligned_cols=145  Identities=30%  Similarity=0.501  Sum_probs=130.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+..++..+.+++||++|++++..++..+++++|++++|||++++++++.+..|+..+..
T Consensus        44 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  123 (191)
T 3dz8_A           44 ADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKT  123 (191)
T ss_dssp             HHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             hcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            34567788889998555 77788888888999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .++|+++|+||+|+.+.+.+..+++..+++.++++++++||++|.|++++|+++++.+.+...
T Consensus       124 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          124 YSW-DNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             hcC-CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            653 578999999999998888888999999999999999999999999999999999999887654

>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=99.96  E-value=5.9e-28  Score=168.47  Aligned_cols=144  Identities=30%  Similarity=0.559  Sum_probs=108.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++|||||++++..++..+++++|++++|||++++.+++.+. .|+..+..
T Consensus        55 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  134 (214)
T 2j1l_A           55 ADGAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNH  134 (214)
T ss_dssp             HC-------CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHH
Confidence            35677888999999888888889999999999999999999999999999999999999999999999997 79888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..  .++|+++|+||+|+.+.            +.++.+++..+++.+++ +++++||++|.|++++|+++++.+.+...
T Consensus       135 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          135 FC--KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             HC--SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             hC--CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            64  57899999999999754            36778889999999997 89999999999999999999999986653

>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=99.96  E-value=2.3e-27  Score=163.78  Aligned_cols=144  Identities=31%  Similarity=0.530  Sum_probs=129.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+..++..+.+++||+||++++..++..+++++|++|+|||++++++++.+..|+..+..
T Consensus        29 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~  108 (203)
T 1zbd_A           29 ADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT  108 (203)
T ss_dssp             HTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35677788899998665 67778899999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. ..+.|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       109 ~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  173 (203)
T 1zbd_A          109 YS-WDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKM  173 (203)
T ss_dssp             HS-CSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             hc-CCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence            64 357899999999999887888888999999999999999999999999999999999887654

>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=99.96  E-value=1.6e-27  Score=163.01  Aligned_cols=142  Identities=27%  Similarity=0.394  Sum_probs=125.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccch-HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFS-AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++. .++..+++++|++++|||++++.+++.+..|+..+.
T Consensus        41 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~  120 (189)
T 1z06_A           41 CAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECK  120 (189)
T ss_dssp             HHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence            35677788899998655 7788889998999999999999998 889999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCC---CCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVR---INVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~---~~i~~~~~~l~~~~~  144 (159)
                      ......+.|+++|+||+|+.+.+.++.+++..+++.++++++++||++|   .|+.++|+++++.+.
T Consensus       121 ~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          121 QHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             HHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             HhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            8765568999999999999887888889999999999999999999999   999999999988764

>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=99.96  E-value=5.8e-28  Score=164.21  Aligned_cols=143  Identities=28%  Similarity=0.498  Sum_probs=127.6

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|.+.+.||+++.+...+.+++..+.+++||+||++++..++..+++++|++++|||++++.++..+. .|+..+..
T Consensus        26 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  105 (186)
T 1mh1_A           26 TTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRH  105 (186)
T ss_dssp             HHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HcCCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHH
Confidence            35678889999999888888889999999999999999999988899999999999999999999999997 79888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..  .+.|+++|+||+|+.+.            +.++.+++..+++.+++ +++++||++|.|++++|+++.+.+.+..
T Consensus       106 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          106 HC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             HS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSCCC
T ss_pred             hC--CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHhccc
Confidence            64  47899999999998653            56788889999999997 8999999999999999999999886543

>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=99.96  E-value=2.5e-27  Score=161.97  Aligned_cols=147  Identities=26%  Similarity=0.467  Sum_probs=129.8

Q ss_pred             cccccccccccccceE--EEEEEECCe---------eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH
Q psy11289          4 ESYFVTDYDPTIEDSY--TKQCVIDDI---------PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI   72 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~--~~~~~~~~~---------~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~   72 (159)
                      .+.|.+.+.||++..+  ...+..++.         .+.+++||+||++++...+..+++++|++++|||++++.++..+
T Consensus        33 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~  112 (195)
T 3bc1_A           33 DGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNV  112 (195)
T ss_dssp             HSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTH
T ss_pred             cCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHH
Confidence            4567788889998665  456666665         78899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         73 YKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        73 ~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ..|+..+.......++|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|+++.+.+.+...+.
T Consensus       113 ~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~~  190 (195)
T 3bc1_A          113 RNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERS  190 (195)
T ss_dssp             HHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHhhhc
Confidence            999999988765567899999999999887788888999999999999999999999999999999999998766543

>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=99.96  E-value=1.8e-27  Score=159.45  Aligned_cols=140  Identities=27%  Similarity=0.502  Sum_probs=125.9

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++.++..+..|+..+..
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  106 (170)
T 1r2q_A           27 VKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQR  106 (170)
T ss_dssp             HHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            34677778889998665 67788899899999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... ++.|+++|+||+|+.+.+.++.+++..++...+++++++||++|.|++++|+++.+.+
T Consensus       107 ~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          107 QAS-PNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             hcC-CCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            643 5789999999999987778888899999999999999999999999999999998765

>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=99.96  E-value=1.8e-27  Score=164.78  Aligned_cols=144  Identities=32%  Similarity=0.504  Sum_probs=129.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++|+|||++++.++..+..|+..+..
T Consensus        29 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~  108 (206)
T 2bcg_Y           29 SDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDR  108 (206)
T ss_dssp             HHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            34667788899999665 67788899999999999999999998899999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++.+.+.+..
T Consensus       109 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          109 YAT-STVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM  173 (206)
T ss_dssp             HSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             hcC-CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            653 57899999999999887888888999999999999999999999999999999999887654

>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=99.96  E-value=6e-28  Score=161.96  Aligned_cols=141  Identities=30%  Similarity=0.483  Sum_probs=120.3

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|.+.+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        28 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  107 (170)
T 1z08_A           28 ENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKM  107 (170)
T ss_dssp             HCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            4567778889999666 677888999999999999999999988999999999999999999999999999999988776


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .. .+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++.+.+.+
T Consensus       108 ~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          108 LG-NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             HG-GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cC-CCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHhh
Confidence            53 478999999999998878888889999999999999999999999999999999998754

>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=99.96  E-value=1.1e-26  Score=154.75  Aligned_cols=141  Identities=58%  Similarity=0.883  Sum_probs=127.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||+++.+...+..++..+.+.+||+||++++...+..+++.+|++++|||++++.++..+..|+..+....
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~  104 (166)
T 2ce2_X           25 QNHFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVK  104 (166)
T ss_dssp             HSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHH
T ss_pred             hCcCccccCCccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            45677888999998888888889999999999999999999999999999999999999999999999999999998876


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...+.|+++|+||+|+.+ +....++..++++.++++++++||++|.|++++|+++.+.+.+
T Consensus       105 ~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X          105 DSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             TCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            555799999999999876 5567888899999999999999999999999999999998754

>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=99.96  E-value=1.7e-27  Score=159.48  Aligned_cols=140  Identities=26%  Similarity=0.490  Sum_probs=125.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++.++..+..|+..+..
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  103 (170)
T 1ek0_A           24 VSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHE  103 (170)
T ss_dssp             HHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHH
Confidence            34667788899999665 67788899999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc---CCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ---RQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... .+.|+++|+||+|+.+.   +.+..+++..+++..+++++++||++|.|++++|+++.+.+
T Consensus       104 ~~~-~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          104 QAS-KDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HSC-TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             hcC-CCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            653 57899999999999765   67888889999999999999999999999999999998765

>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=99.96  E-value=3.4e-27  Score=159.74  Aligned_cols=143  Identities=29%  Similarity=0.553  Sum_probs=118.5

Q ss_pred             cccc-cccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          4 ESYF-VTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         4 ~~~f-~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .+.| ...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++++|||++++.+++.+..|+..+..
T Consensus        32 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~  111 (180)
T 2g6b_A           32 DGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHE  111 (180)
T ss_dssp             HSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             hCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            3445 357789998666 56678899999999999999999999999999999999999999999999999999999888


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+.+.+..+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       112 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  176 (180)
T 2g6b_A          112 YAQ-HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRS  176 (180)
T ss_dssp             HSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC--
T ss_pred             hCC-CCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            754 57899999999999887888888999999999999999999999999999999999887543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.96  E-value=2.5e-27  Score=162.61  Aligned_cols=143  Identities=30%  Similarity=0.547  Sum_probs=120.7

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||++|++++..++..+++++|++|+|||++++.+++.+..|+..+..
T Consensus        47 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~  126 (192)
T 2il1_A           47 TDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDK  126 (192)
T ss_dssp             CC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             hcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35567778889998554 77888899999999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ... .+.|+++|+||+|+.+.+.++.+++..+++.+ +++++++||++|.|++++|+++.+.+.++
T Consensus       127 ~~~-~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          127 YAS-EDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             hcC-CCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            643 57899999999999887888888899999885 78999999999999999999999988653

>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=99.96  E-value=3.4e-28  Score=165.75  Aligned_cols=141  Identities=27%  Similarity=0.435  Sum_probs=125.4

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||+++|..++..+++++|++++|||++++++++.+ ..|+..+..
T Consensus        28 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~  107 (184)
T 1m7b_A           28 AKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQE  107 (184)
T ss_dssp             HHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            3567888899999988877888899899999999999999998899999999999999999999999998 689888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcC-CcEEEeCCC-CCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLR-IPYIECSAK-VRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa~-~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  ++.|+++|+||+|+.+.            +.++.+++..+++.++ +++++|||+ +|.|++++|+++++.+++
T Consensus       108 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          108 FC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             HC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HC--CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            64  57899999999999742            5688889999999988 789999999 689999999999998864

>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=99.96  E-value=2e-27  Score=162.49  Aligned_cols=144  Identities=31%  Similarity=0.540  Sum_probs=128.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+..++..+.+++||+||++++...+..+++++|++++|||++++.+++.+..|+..+..
T Consensus        43 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~  122 (189)
T 2gf9_A           43 ADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKT  122 (189)
T ss_dssp             HHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35667788889998665 67778889899999999999999998899999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. ..+.|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       123 ~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          123 YS-WDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM  187 (189)
T ss_dssp             HS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hc-CCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            64 257899999999999887888888999999999999999999999999999999999887643

>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=99.96  E-value=1.5e-27  Score=164.82  Aligned_cols=147  Identities=29%  Similarity=0.487  Sum_probs=121.0

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||++|++++..++..+++++|++|+|||++++.+++.+..|+..+..
T Consensus        46 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  125 (200)
T 2o52_A           46 IENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDART  125 (200)
T ss_dssp             HC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35667778889998555 77788899989999999999999988899999999999999999999999999999998877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccC
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC  150 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~  150 (159)
                      ... .++|+++|+||+|+.+.+.++..++..+++..+++++++||++|.|++++|+++++.+.+.....
T Consensus       126 ~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~~~  193 (200)
T 2o52_A          126 LAS-PNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSG  193 (200)
T ss_dssp             HTC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHTT
T ss_pred             hcC-CCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHhcC
Confidence            653 57899999999999877888888999999999999999999999999999999999998766444

>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=99.95  E-value=1.9e-27  Score=159.14  Aligned_cols=140  Identities=34%  Similarity=0.551  Sum_probs=127.1

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++++|||++++++++.+..|+..+...
T Consensus        27 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  106 (168)
T 1z2a_A           27 KGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAE  106 (168)
T ss_dssp             HCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            4567788899998554 788888999999999999999999888999999999999999999999999999999998887


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .  .+.|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+
T Consensus       107 ~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          107 V--GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             H--CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             C--CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            6  678999999999998777888889999999999999999999999999999999998764

>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=99.95  E-value=2.6e-27  Score=163.34  Aligned_cols=142  Identities=30%  Similarity=0.433  Sum_probs=116.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++|+|||++++.+++.+..|+..+..
T Consensus        49 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~  128 (199)
T 2p5s_A           49 CKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIED  128 (199)
T ss_dssp             HHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHH
Confidence            34567778889998555 67888899999999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCC------CcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLD------HQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... .++|+++|+||+|+.      ..+.+..+++..+++..+++++++||++|.|++++|+++++.+.+
T Consensus       129 ~~~-~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          129 AAH-ETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             HC----CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             hcC-CCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            643 478999999999996      456788888999999999999999999999999999999998754

>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=99.95  E-value=9.4e-27  Score=159.11  Aligned_cols=143  Identities=55%  Similarity=0.850  Sum_probs=119.1

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||+++.+...+.+++..+.+.+||+||++++..++..+++.+|++++|||++++.++..+..|+..+....
T Consensus        43 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  122 (190)
T 3con_A           43 QNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVK  122 (190)
T ss_dssp             HSSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCccccCCccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHh
Confidence            45677888999998888888899999999999999999999999999999999999999999999999999999988876


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...++|+++|+||+|+.+ +.+..+++.++++.++++++++||++|.|++++|+++.+.+.+.+
T Consensus       123 ~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  185 (190)
T 3con_A          123 DSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYR  185 (190)
T ss_dssp             TCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            555789999999999876 567788899999999999999999999999999999999987654

>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=99.95  E-value=1e-27  Score=167.22  Aligned_cols=147  Identities=30%  Similarity=0.517  Sum_probs=127.9

Q ss_pred             ccccccccccccccceE-EEEEEECCe----------eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDI----------PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~----------~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   71 (159)
                      +.+.|...+.||++..+ .+.+.+++.          .+.++|||++|++++...+..+++++|++|+|||++++.+++.
T Consensus        46 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~  125 (217)
T 2f7s_A           46 TDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLN  125 (217)
T ss_dssp             HCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHH
T ss_pred             hcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCCEEEEEEECcCHHHHHH
Confidence            35667788889998665 667777765          7889999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      +..|+..+.......++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+....
T Consensus       126 ~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          126 VRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             HHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHhhc
Confidence            999988876654435789999999999988788888999999999999999999999999999999999998875433

>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=99.95  E-value=4.7e-27  Score=161.06  Aligned_cols=144  Identities=26%  Similarity=0.462  Sum_probs=128.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++|+|||++++.++..+..|+..+..
T Consensus        46 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~  125 (193)
T 2oil_A           46 TRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYD  125 (193)
T ss_dssp             HHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHT
T ss_pred             hcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            34567778889998665 67788899999999999999999999999999999999999999999999999999998877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++.+.+.+..
T Consensus       126 ~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          126 HAE-ATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             TSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             hcC-CCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            543 57899999999999877788888999999999999999999999999999999999887654

>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=99.95  E-value=7.7e-27  Score=159.86  Aligned_cols=144  Identities=31%  Similarity=0.502  Sum_probs=128.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++++|||++++.++..+..|+..+..
T Consensus        36 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~  115 (195)
T 1x3s_A           36 TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELET  115 (195)
T ss_dssp             HHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTT
T ss_pred             HcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            35667788899998665 67788899999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .....++|+++|+||+|+. .+.+..+++..+++..+++++++||++|.|++++|+++.+.+.+..
T Consensus       116 ~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (195)
T 1x3s_A          116 YCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  180 (195)
T ss_dssp             CCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             hcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHhhh
Confidence            6655678999999999994 3567788899999999999999999999999999999999987654

>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=99.95  E-value=5.6e-27  Score=157.12  Aligned_cols=141  Identities=29%  Similarity=0.478  Sum_probs=126.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|||++++.+++.+..|+..+..
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~  106 (170)
T 1z0j_A           27 VEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQ  106 (170)
T ss_dssp             HHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHH
Confidence            34567788899999665 67788899889999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ... +..|+++|+||+|+.+.+.+..+++..+++..+++++++||++|.|++++|+++.+.+.
T Consensus       107 ~~~-~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          107 HGP-PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             HSC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHCC
T ss_pred             hCC-CCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            643 67899999999999887888888999999999999999999999999999999988753

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.95  E-value=1.1e-27  Score=168.00  Aligned_cols=146  Identities=29%  Similarity=0.477  Sum_probs=120.9

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++..++..+++++|++|+|||++++.+++.+..|+..+..
T Consensus        34 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~  113 (223)
T 3cpj_B           34 TKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRE  113 (223)
T ss_dssp             HHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence            35667778889998665 67788899989999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ... .++|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++.+.+.+....
T Consensus       114 ~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  180 (223)
T 3cpj_B          114 NAD-DNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSK  180 (223)
T ss_dssp             HCC---CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTCC--
T ss_pred             hCC-CCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhh
Confidence            643 5789999999999987788888899999999999999999999999999999999998866543

>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=99.95  E-value=3.1e-27  Score=158.36  Aligned_cols=142  Identities=33%  Similarity=0.566  Sum_probs=119.6

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|||++++.+++.+..|+..+...
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  104 (170)
T 1g16_A           25 EDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEH  104 (170)
T ss_dssp             HCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             hCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4567778889998655 677788888899999999999999988999999999999999999999999999999998876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. .+.|+++|+||+|+ ..+.+..+++..+++.++++++++||++|.|++++|+++.+.+.++.
T Consensus       105 ~~-~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  167 (170)
T 1g16_A          105 AN-DEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI  167 (170)
T ss_dssp             SC-TTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHTC
T ss_pred             cC-CCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            53 57899999999999 44667788889999999999999999999999999999999887653

>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=99.95  E-value=1.9e-27  Score=163.15  Aligned_cols=143  Identities=29%  Similarity=0.448  Sum_probs=126.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+++||+||++++...+..+++++|++++|||++++++++.+..|+..+..
T Consensus        44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~  123 (192)
T 2fg5_A           44 VQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKE  123 (192)
T ss_dssp             HHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHH
T ss_pred             hcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHH
Confidence            34567778899999665 66777788888999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ... .++|+++|+||+|+.+.+.++.+++..+++.++++++++||++|.|++++|+++.+.+.+.
T Consensus       124 ~~~-~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          124 HGP-ENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPL  187 (192)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC--
T ss_pred             hCC-CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            652 5789999999999987778888999999999999999999999999999999999877543

>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=99.95  E-value=8.6e-28  Score=166.78  Aligned_cols=141  Identities=28%  Similarity=0.439  Sum_probs=125.3

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+...+.+++..+.+++|||+|+++|..++..+++++|++|+|||++++++++.+ ..|+..+..
T Consensus        49 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~  128 (205)
T 1gwn_A           49 AKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQE  128 (205)
T ss_dssp             HHSCCCSSCCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCCcCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            3567888899999988877788888899999999999999998899999999999999999999999998 689988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCC-CCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAK-VRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~-~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .+.|+++|+||+|+.+            .+.++.+++..+++.++ +++++|||+ +|.|++++|+.+++.++.
T Consensus       129 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          129 FC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             HC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             HC--CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            65  5789999999999964            25688889999999988 689999999 689999999999998875

>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=99.95  E-value=5.3e-27  Score=162.04  Aligned_cols=141  Identities=29%  Similarity=0.497  Sum_probs=125.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+...+.+++..+.+++||+||++++..++..+++++|++++|||+++++++..+ ..|+..+..
T Consensus        46 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  125 (201)
T 2gco_A           46 SKDQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKH  125 (201)
T ss_dssp             HHSSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HhCcCCcccCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            3567788899999988777788899999999999999999998899999999999999999999999999 578888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .+.|+++|+||+|+.+.            +.++.+++..+++.+++ +++++||++|.|++++|+++.+.+.+
T Consensus       126 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          126 FC--PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             HS--TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             hC--CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            54  57899999999999764            56788889999999998 79999999999999999999988753

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.95  E-value=1.3e-27  Score=165.24  Aligned_cols=142  Identities=25%  Similarity=0.315  Sum_probs=106.0

Q ss_pred             ccccccccccc-ceEEEEEEECCe--eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          6 YFVTDYDPTIE-DSYTKQCVIDDI--PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         6 ~f~~~~~pt~~-~~~~~~~~~~~~--~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .|.+.+.||++ +.+...+.+++.  .+.+++||+||++++..++..+++++|++++|||++++.+++.+..|+..+...
T Consensus        46 ~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  125 (208)
T 2yc2_C           46 KFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSA  125 (208)
T ss_dssp             ---------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             cccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            67888999998 445778888887  889999999999999999999999999999999999999999999999999887


Q ss_pred             cC--CCCCcEEEEEeCCCCCC-cCCCCHHHHHHHHHHcCCcEEEeCCCC-CCCHHHHHHHHHHHHHhcc
Q psy11289         83 KD--RDEFPMLMVGNKADLDH-QRQVSSMDAQNVARQLRIPYIECSAKV-RINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~sa~~-~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..  ..++|+++|+||+|+.+ .+.++.+++..+++.++++++++||++ |.|++++|+++.+.+.+..
T Consensus       126 ~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~~  194 (208)
T 2yc2_C          126 RPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNY  194 (208)
T ss_dssp             CSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-------CHHHHHHHHHHHHHH
T ss_pred             hcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHHH
Confidence            54  24789999999999987 778888999999999999999999999 9999999999999887654

>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=99.95  E-value=2.4e-26  Score=155.12  Aligned_cols=142  Identities=37%  Similarity=0.558  Sum_probs=121.6

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++..+ ...+.+++..+.+.+||+||++++...+..+++++|++++|||++++.+++.+..|+..+...
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  108 (177)
T 1wms_A           29 TNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYY  108 (177)
T ss_dssp             HSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHH
Confidence            4567788899999665 788888999999999999999999999999999999999999999999999999999998776


Q ss_pred             cCC---CCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         83 KDR---DEFPMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        83 ~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...   .+.|+++|+||+|+. .+.+..+++..+++ ..+++++++||++|.|++++|+++++.+.+.
T Consensus       109 ~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (177)
T 1wms_A          109 ADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLAT  175 (177)
T ss_dssp             HTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             ccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            532   578999999999997 46677888889988 5678999999999999999999999988753

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.95  E-value=5.8e-27  Score=157.18  Aligned_cols=142  Identities=35%  Similarity=0.583  Sum_probs=125.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||++..+...+..++..+.+++||+||++++..++..+++++|++++|||++++.+++.+..|+..+.+..
T Consensus        25 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~  104 (172)
T 2erx_A           25 KGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIK  104 (172)
T ss_dssp             TCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHh
Confidence            45677788999998877778889998999999999999999999999999999999999999999999999988887764


Q ss_pred             C-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         84 D-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        84 ~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      . ..+.|+++|+||+|+.+.+.+...++..++...+++++++||++|.|++++|+++.+.+.+
T Consensus       105 ~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  167 (172)
T 2erx_A          105 GDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKR  167 (172)
T ss_dssp             C---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCCS
T ss_pred             CCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            2 2478999999999998878888888899999999999999999999999999999986643

>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=99.95  E-value=5.7e-27  Score=158.30  Aligned_cols=140  Identities=31%  Similarity=0.515  Sum_probs=126.0

Q ss_pred             cccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++.. ....+.+++..+.+.+||+||++++...+..+++++|++++|||++++.++..+..|+..+...
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~  115 (179)
T 2y8e_A           36 YDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTE  115 (179)
T ss_dssp             HSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            466778888999854 4788888999999999999999999999999999999999999999999999999999998876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .. .+.|+++|+||+|+.+.+.++.+++..+++..+++++++||++|.|++++|+++.+.+.
T Consensus       116 ~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          116 RG-SDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             HT-TSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             cC-CCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            53 57899999999999887888888999999999999999999999999999999988653

>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=99.95  E-value=7.2e-27  Score=162.08  Aligned_cols=143  Identities=29%  Similarity=0.477  Sum_probs=120.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHH-HHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEI-YKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+...+.+++..+.+.+|||||++++..++..+++++|++++|||+++++++..+ ..|+..+..
T Consensus        46 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  125 (207)
T 2fv8_A           46 SKDEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKH  125 (207)
T ss_dssp             HHSSCC-------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCcCCCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            3466778889999988877788899999999999999999998899999999999999999999999998 578888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..  +++|+++|+||+|+.+.            +.++.+++..++...++ +++++||++|.|++++|+++.+.+.+.+
T Consensus       126 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~~~  202 (207)
T 2fv8_A          126 FC--PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQKR  202 (207)
T ss_dssp             HS--TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHSCC
T ss_pred             hC--CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            54  57899999999999654            56778889999999997 8999999999999999999999987654

>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=99.95  E-value=1.6e-28  Score=166.60  Aligned_cols=141  Identities=30%  Similarity=0.601  Sum_probs=107.5

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||+||++++..++..+++++|++++|||++++++++.+. .|+..+..
T Consensus        29 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  108 (182)
T 3bwd_D           29 TSNTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKH  108 (182)
T ss_dssp             HHSCCC----------CBCCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             hcCCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            35678889999999777666677888889999999999999999999999999999999999999999997 79888887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCC----------CCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQ----------VSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .+.|+++|+||+|+.+.+.          ++.+++..+++.+++ +++++||++|.|++++|+++++.+.+
T Consensus       109 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  181 (182)
T 3bwd_D          109 YA--PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVLQ  181 (182)
T ss_dssp             HC--TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             hC--CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            64  4789999999999865443          477888999999996 89999999999999999999988753

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.95  E-value=3.5e-26  Score=157.30  Aligned_cols=141  Identities=26%  Similarity=0.430  Sum_probs=122.5

Q ss_pred             ccccccccccccccceE-EEEEEECCee-------------------------------------EEEEEEeCCCcccch
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIP-------------------------------------ARLDILDTAGQEEFS   44 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~-------------------------------------~~~~l~D~~g~~~~~   44 (159)
                      +.+.|.+.+.||++..+ ...+.+++..                                     +.+.+||+||++++.
T Consensus        28 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~  107 (208)
T 3clv_A           28 TKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYA  107 (208)
T ss_dssp             HHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CCCTTTCEEEEEEEECTTGGGCT
T ss_pred             HhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccccccCccceeEEEEEECCCcHHHH
Confidence            34567788999998665 6667777655                                     889999999999999


Q ss_pred             HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEe
Q psy11289         45 AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIEC  124 (159)
Q Consensus        45 ~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (159)
                      ..+..+++.+|++++|||++++.++..+..|+..+....   +.|+++|+||+| ...+.+..+++..+++..+++++++
T Consensus       108 ~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~---~~piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~  183 (208)
T 3clv_A          108 SIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS---NYIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQT  183 (208)
T ss_dssp             TTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS---CCEEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEE
T ss_pred             HHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC---CCcEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEE
Confidence            999999999999999999999999999999999988764   389999999999 5556788889999999999999999


Q ss_pred             CCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        125 SAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       125 sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ||++|.|++++|+++.+.+.++.
T Consensus       184 Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          184 SAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             ecCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999887654

>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=99.95  E-value=2.6e-26  Score=157.75  Aligned_cols=143  Identities=31%  Similarity=0.509  Sum_probs=116.8

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCccc-chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE-FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~-~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      ..|.+.++++..+.+.+.+.+++..+.+.+|||+|++. +..++..+++.+|++++|||+++++||+.+..|+..+....
T Consensus        31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~  110 (192)
T 2cjw_A           31 DSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRAR  110 (192)
T ss_dssp             CCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHT
T ss_pred             CCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhh
Confidence            34566666544465678888999999999999999876 45567788899999999999999999999999988887764


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...++|+++|+||+|+.+.+.+..+++..++..+++++++|||++|.|++++|+++++.+....
T Consensus       111 ~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          111 QTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             TTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHHHHHHHHHHhhc
Confidence            4457899999999999877788888888899999999999999999999999999999886443

>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=99.95  E-value=2.7e-26  Score=157.67  Aligned_cols=144  Identities=35%  Similarity=0.591  Sum_probs=126.8

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|...+.||++..+...+..++..+.+.+|||||++++..++..+++++|++++|||++++.+++.+..|+..+....
T Consensus        30 ~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~  109 (199)
T 2gf0_A           30 KGTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIK  109 (199)
T ss_dssp             HSCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHH
T ss_pred             cCCCCCcccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHh
Confidence            46677888999998877778889999999999999999999999999999999999999999999999998888777754


Q ss_pred             C-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         84 D-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        84 ~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      . ..+.|+++|+||+|+.+ +.+..+++..++..++++++++||++|.|++++|+++++.+.++..
T Consensus       110 ~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (199)
T 2gf0_A          110 GSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNM  174 (199)
T ss_dssp             SCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCSSSCE
T ss_pred             cCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHhhhhc
Confidence            3 24789999999999975 5677888889999999999999999999999999999998876543

>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=99.95  E-value=4e-26  Score=158.46  Aligned_cols=142  Identities=33%  Similarity=0.564  Sum_probs=126.1

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++++|||++++.++..+..|+..+...
T Consensus        42 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~  121 (213)
T 3cph_A           42 EDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEH  121 (213)
T ss_dssp             HCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             hCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHh
Confidence            4567778889998655 677888999899999999999999988999999999999999999999999999999998876


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. .+.|+++|+||+|+ ..+.+..+++..+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       122 ~~-~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          122 AN-DEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             TT-TCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             cC-CCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            53 47899999999999 44667788889999999999999999999999999999999887654

>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=99.95  E-value=3.3e-27  Score=163.54  Aligned_cols=139  Identities=28%  Similarity=0.526  Sum_probs=122.6

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|.+.+.||+++.+...+.+++..+.+++|||||++++..++..+++++|++++|||++++.+++.+. .|+..+..
T Consensus        51 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  130 (204)
T 4gzl_A           51 TTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRH  130 (204)
T ss_dssp             HHSCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HhCCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHH
Confidence            45778889999999888888889999999999999999999999999999999999999999999999997 89888887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcC------------CCCHHHHHHHHHHcCCc-EEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNVARQLRIP-YIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..  .++|+++|+||+|+.+..            .++.+++..+++.+++. ++++||++|.|++++|+++++.+
T Consensus       131 ~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          131 HC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HC--SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             hC--CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            65  678999999999986543            37788899999999964 99999999999999999998754

>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=99.95  E-value=2.3e-27  Score=162.63  Aligned_cols=134  Identities=19%  Similarity=0.253  Sum_probs=114.1

Q ss_pred             ccccccceE-EEEE-EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECC------ChhhHHHHHHHHHHHHhh
Q psy11289         11 YDPTIEDSY-TKQC-VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT------DRNSFEEIYKFHRQILRV   82 (159)
Q Consensus        11 ~~pt~~~~~-~~~~-~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~------~~~s~~~~~~~~~~i~~~   82 (159)
                      +.||++..+ ...+ .+++..+.+++|||||++++..++..+++++|++|+|||++      +.++++.+..|+..+.. 
T Consensus        53 ~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-  131 (198)
T 3t1o_A           53 DERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-  131 (198)
T ss_dssp             SCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-
T ss_pred             cccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-
Confidence            445776554 4444 56788899999999999999999999999999999999999      56788888888887743 


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                       ...++|+++|+||+|+.+  .++.+++.++++..++ +++++||++|.|++++|+++++.+.++..
T Consensus       132 -~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          132 -TLDDVPIVIQVNKRDLPD--ALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             -CTTSSCEEEEEECTTSTT--CCCHHHHHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             -ccCCCCEEEEEEchhccc--ccCHHHHHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence             236789999999999865  3778899999999999 99999999999999999999999987654

>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=99.94  E-value=2.1e-26  Score=155.86  Aligned_cols=145  Identities=34%  Similarity=0.564  Sum_probs=111.6

Q ss_pred             ccccccccccccccce-EEEEEEEC-CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVID-DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~-~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|...+.||++.. ....+.++ +..+.+++||+||++++...+..+++++|++++|||++++.+++.+..|+..+.
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  108 (182)
T 1ky3_A           29 VNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFL  108 (182)
T ss_dssp             HHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHH
Confidence            3456778889999844 46777776 667889999999999999999999999999999999999999999999999888


Q ss_pred             hhcC---CCCCcEEEEEeCCCCC-CcCCCCHHHHHHHHH-HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKD---RDEFPMLMVGNKADLD-HQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~---~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ....   ..+.|+++|+||+|+. ..+.+..+++..+++ ..+++++++||++|.|++++|+++.+.+.+++
T Consensus       109 ~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          109 VHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             HHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            7653   2578999999999995 345677888888988 45689999999999999999999999987654

>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=99.94  E-value=4.1e-26  Score=159.21  Aligned_cols=148  Identities=23%  Similarity=0.372  Sum_probs=124.1

Q ss_pred             ccccccccccccccceE-EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+.|...+.||++..+ ...... ++..+.+.+|||+|++++..++..+++++|++|+|||++++.+++.+..|+..+.
T Consensus        32 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  111 (218)
T 4djt_A           32 LDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQ  111 (218)
T ss_dssp             TTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             hcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHH
Confidence            35667788899998665 444444 3455889999999999999899999999999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccccCC
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQCK  151 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~~~  151 (159)
                      .... .+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|+++.+.+.+......
T Consensus       112 ~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~~~~  181 (218)
T 4djt_A          112 AVVG-NEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIF  181 (218)
T ss_dssp             HHHC-SSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCTTCCB
T ss_pred             HhcC-CCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhccccccc
Confidence            8764 468999999999998877888888889999999999999999999999999999999987664443

>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=99.94  E-value=7e-26  Score=156.59  Aligned_cols=144  Identities=36%  Similarity=0.602  Sum_probs=124.5

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||+||++++..++..+++++|++|+|||++++.++..+..|+..+..
T Consensus        29 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~  108 (207)
T 1vg8_A           29 VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLI  108 (207)
T ss_dssp             HHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            34567788899998554 77788888888999999999999988888999999999999999999999999999998877


Q ss_pred             hcCC---CCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDR---DEFPMLMVGNKADLDHQRQVSSMDAQNVAR-QLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ....   .+.|+++|+||+|+. .+.+..+++..++. ..+++++++||++|.|++++|+++.+.+.+..
T Consensus       109 ~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          109 QASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE  177 (207)
T ss_dssp             HHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            6532   468999999999997 45667788888887 66789999999999999999999999887654

>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=99.94  E-value=4.7e-26  Score=159.33  Aligned_cols=141  Identities=25%  Similarity=0.469  Sum_probs=124.1

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||.+..+ .....+++..+.+++|||+|++++..++..+++++|++++|||++++.++..+..|+..+..
T Consensus        36 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  115 (221)
T 3gj0_A           36 LTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVR  115 (221)
T ss_dssp             HHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            46678888999998554 77788899999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..  .++|+++|+||+|+.+....  .+...+++..+++++++||++|.|++++|+++.+.+....
T Consensus       116 ~~--~~~p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~~  177 (221)
T 3gj0_A          116 VC--ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDP  177 (221)
T ss_dssp             HS--TTCCEEEEEECTTSSSCSSC--GGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTCT
T ss_pred             hC--CCCCEEEEEECCcccccccc--HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhCc
Confidence            75  57899999999999764432  2566788888999999999999999999999999987654

>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=99.94  E-value=1.4e-25  Score=165.26  Aligned_cols=142  Identities=27%  Similarity=0.505  Sum_probs=127.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|...+.||+++.+...+.+++..+.+++||+||++++...+..+++++|++++|||++++.++..+. .|+..+..
T Consensus       176 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  255 (332)
T 2wkq_A          176 TTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRH  255 (332)
T ss_dssp             HHSCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH
T ss_pred             HhCCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHh
Confidence            35678889999999888888899999999999999999999999999999999999999999999999987 78888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCc------------CCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQ------------RQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..  .++|+++|+||+|+.+.            +.++.+++..+++..++ ++++|||++|.|++++|+++.+.+...
T Consensus       256 ~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  331 (332)
T 2wkq_A          256 HC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP  331 (332)
T ss_dssp             HC--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC-
T ss_pred             hC--CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhcC
Confidence            65  47899999999998653            57888899999999997 899999999999999999999988653

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.93  E-value=8.1e-28  Score=165.85  Aligned_cols=143  Identities=31%  Similarity=0.538  Sum_probs=116.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|...+.||++..+ ...+.+++..+.+.+||++|++++..++..+++++|++++|||++++.+++.+..|+..+..
T Consensus        54 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~  133 (199)
T 3l0i_B           54 ADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDR  133 (199)
T ss_dssp             BCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHS
T ss_pred             hcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHH
Confidence            35667777888888555 78888899999999999999999988889999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ... .++|+++|+||+|+.+.+.++.+++..++..++++++++||++|.|++++|+++.+.+.++
T Consensus       134 ~~~-~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          134 YAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             CC--CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTTT
T ss_pred             hcc-CCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            643 4789999999999987777777788899999999999999999999999999998877543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.93  E-value=3.9e-26  Score=156.92  Aligned_cols=142  Identities=13%  Similarity=0.183  Sum_probs=108.1

Q ss_pred             ccccccc-cccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVT-DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~-~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.. ++.||++..+ ..+  ++..+.+++|||+|++++..++..+++++|++|+|||++++++|..+..|+..+..
T Consensus        38 ~~~~~~~~~~~~t~~~~~-~~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~  114 (199)
T 4bas_A           38 KPAQSSSKHITATVGYNV-ETF--EKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLK  114 (199)
T ss_dssp             SCCC----CCCCCSSEEE-EEE--EETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHT
T ss_pred             hcCCCcccccccccceeE-EEE--EeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHh
Confidence            4566777 7899998443 223  34456677799999999999999999999999999999999999999999988876


Q ss_pred             hcCC-------CCCcEEEEEeCCCCCCcCCCCHHHHH-HH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDR-------DEFPMLMVGNKADLDHQRQVSSMDAQ-NV-----ARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~-------~~~p~ivv~nK~D~~~~~~~~~~~~~-~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ....       .++|+++|+||+|+.+...  .++.. .+     ++..++++++|||++|.|++++|+++.+.+.+...
T Consensus       115 ~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          115 HEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             SHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             ChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            5321       2789999999999976432  22221 11     13456789999999999999999999999987754


Q ss_pred             c
Q psy11289        149 Q  149 (159)
Q Consensus       149 ~  149 (159)
                      +
T Consensus       193 ~  193 (199)
T 4bas_A          193 K  193 (199)
T ss_dssp             -
T ss_pred             c
Confidence            4

>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=99.87  E-value=1.9e-27  Score=164.48  Aligned_cols=139  Identities=29%  Similarity=0.539  Sum_probs=121.4

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH-HHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY-KFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~-~~~~~i~~   81 (159)
                      +.+.|.+.+.||+++.+...+.+++..+.+++||+||++++...+..+++++|++++|||++++.++..+. .|+..+..
T Consensus        51 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~  130 (204)
T 3th5_A           51 TTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRH  130 (204)
Confidence            45678888999999888777888898999999999999999999999999999999999999999999987 78887766


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcC------------CCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQR------------QVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..  .++|+++|+||+|+.+..            .++.+++..+++.+++ +++++||++|.|++++|+++++.+
T Consensus       131 ~~--~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          131 HC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            54  478999999999996543            5666777888888887 899999999999999999998765

>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=99.92  E-value=3.7e-25  Score=152.58  Aligned_cols=132  Identities=15%  Similarity=0.266  Sum_probs=101.7

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +.| ..+.||++.. ...+.+++  +.+++|||||++++..++..+++++|++++|||+++++++..+..|+..+.+...
T Consensus        48 ~~~-~~~~~t~~~~-~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~  123 (198)
T 1f6b_A           48 DRL-GQHVPTLHPT-SEELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDET  123 (198)
T ss_dssp             C-------CCCCCS-CEEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGG
T ss_pred             CCC-CccCCCCCce-eEEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcc
Confidence            344 3577888865 35566777  5677799999999999999999999999999999999999999999998877544


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-----------------cCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-----------------LRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..++|+++|+||+|+.+  .++.++..+++..                 .++++++|||++|.|++++|+++.+.
T Consensus       124 ~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          124 IANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             GTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             cCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence            46789999999999875  5667777776652                 23579999999999999999999764

>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=99.92  E-value=2.3e-25  Score=148.62  Aligned_cols=136  Identities=16%  Similarity=0.206  Sum_probs=103.2

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++.. ...+..+  .+.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        22 ~~~~~-~~~~t~~~~-~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~   97 (164)
T 1r8s_A           22 LGEIV-TTIPTIGFN-VETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAED   97 (164)
T ss_dssp             HHCSS-CCCCCSSCC-EEEEECS--SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCG
T ss_pred             cCCcC-cccCcCcee-EEEEEEC--CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhch
Confidence            34554 367888833 3334433  4567779999999999999999999999999999999999999999998887754


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...+.|+++|+||+|+.+..  ..++....     +...+++++++||++|.|++++|+++.+.+.+
T Consensus        98 ~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A           98 ELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             GGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             hhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHhh
Confidence            44678999999999996532  22222221     11234579999999999999999999987754

>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=99.92  E-value=1.4e-24  Score=148.69  Aligned_cols=132  Identities=17%  Similarity=0.340  Sum_probs=107.8

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +.| ..+.||++.. ...+.+++  +.+++|||||++++..++..+++++|++++|||++++++++.+..|+..+.+...
T Consensus        46 ~~~-~~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~  121 (190)
T 1m2o_B           46 DRL-ATLQPTWHPT-SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAE  121 (190)
T ss_dssp             SCC-CCCCCCCSCE-EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGG
T ss_pred             CCC-CccccCCCCC-eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchh
Confidence            344 3577888864 45667777  5677799999999998899999999999999999999999999999998877544


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH------------cCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ------------LRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..+.|+++|+||+|+.+  .++.++..+.+..            .++++++|||++|.|++++|+++.+.
T Consensus       122 ~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          122 LKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             GTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             hcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence            46789999999999875  5566666655432            34679999999999999999999754

>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=99.92  E-value=2e-25  Score=165.94  Aligned_cols=143  Identities=16%  Similarity=0.190  Sum_probs=115.4

Q ss_pred             cccccccccccccceE----------EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC--------
Q psy11289          4 ESYFVTDYDPTIEDSY----------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD--------   65 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~--------   65 (159)
                      ++.|.++|.||..+.+          ...+.++  .+.+++|||+|+++++++|..|+++++++|||||+++        
T Consensus       159 ~ri~~~~Y~PT~~Dil~~~~~T~Gi~~~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed  236 (353)
T 1cip_A          159 DRIAQPNYIPTQQDVLRTRVKTTGIVETHFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAED  236 (353)
T ss_dssp             HHHTSTTCCCCHHHHHTCCCCCCSEEEEEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTE
T ss_pred             HHHhcCCCCCCccccccccCceeceEEEEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECcccccccccc
Confidence            4567788888765421          2334444  4667889999999999999999999999999999999        


Q ss_pred             --hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC---------------CCCHHHHHHHHH-----------Hc
Q psy11289         66 --RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR---------------QVSSMDAQNVAR-----------QL  117 (159)
Q Consensus        66 --~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~---------------~~~~~~~~~~~~-----------~~  117 (159)
                        .+++.+...|+..+.......++|+++++||+|+.+++               .++.+++..++.           ..
T Consensus       237 ~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~  316 (353)
T 1cip_A          237 EEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTK  316 (353)
T ss_dssp             EEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTC
T ss_pred             chhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCC
Confidence              56799999999998875444679999999999985322               467888888887           34


Q ss_pred             CCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        118 RIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       118 ~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ++.+++|||++|.||.++|+++...+.+...
T Consensus       317 ~~~~~etSA~~~~nV~~vF~~v~~~i~~~~l  347 (353)
T 1cip_A          317 EIYTHFTCATDTKNVQFVFDAVTDVIIKNNL  347 (353)
T ss_dssp             CEEEEECCTTCHHHHHHHHHHHHHHHHHHC-
T ss_pred             ceEEEEEECcCchhHHHHHHHHHHHHHHHHH
Confidence            5779999999999999999999999876553

>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=99.92  E-value=3.5e-24  Score=146.10  Aligned_cols=139  Identities=19%  Similarity=0.263  Sum_probs=104.8

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++.. ...+.+++  +.+++||++|++++..++..+++++|++++|||++++++++.+..|+..+....
T Consensus        38 ~~~~~-~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~  113 (187)
T 1zj6_A           38 MNEVV-HTSPTIGSN-VEEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHE  113 (187)
T ss_dssp             TTSCE-EEECCSCSS-CEEEEETT--EEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSG
T ss_pred             cCCCC-cCcCCCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhch
Confidence            35555 678888843 34455665  556779999999999999999999999999999999999999999999888764


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ...+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|++++|+++++.+.....
T Consensus       114 ~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~  181 (187)
T 1zj6_A          114 DLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKIRLE  181 (187)
T ss_dssp             GGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHCC---
T ss_pred             hhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHHHHhh
Confidence            3367899999999999652  33444444332     235689999999999999999999998755443

>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=99.92  E-value=2.2e-25  Score=152.36  Aligned_cols=138  Identities=21%  Similarity=0.275  Sum_probs=107.1

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|...+.||++..+.. +..+  .+.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+...
T Consensus        43 ~~~~~~~~~~~t~~~~~~~-~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~  119 (188)
T 1zd9_A           43 ASGQFNEDMIPTVGFNMRK-ITKG--NVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK  119 (188)
T ss_dssp             HHSCCCCSCCCCCSEEEEE-EEET--TEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTC
T ss_pred             HcCCCCCccCCCCceeEEE-EEeC--CEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhC
Confidence            3566777889999876542 3333  456777999999999999999999999999999999999999999999888765


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHH-----HHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-----RQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ....++|+++|+||+|+.+..  ..++.....     ...+++++++||++|.|++++|+++.+.+.+
T Consensus       120 ~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          120 PQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             GGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             cccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            433678999999999986532  222222211     1234579999999999999999999987644

>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=99.92  E-value=4e-23  Score=142.33  Aligned_cols=143  Identities=27%  Similarity=0.476  Sum_probs=123.4

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      ...|...+.||++..+ ...+.++|..+.+++||++|++++...+..++++++++++|||++++.++..+..|+..+...
T Consensus        27 ~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  106 (199)
T 2f9l_A           27 RNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH  106 (199)
T ss_dssp             HSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            4456777889998655 778889999999999999999999888889999999999999999999999998998887665


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .. .+.|+++++||+|+.+.+.++.+++..++...++.++++||+++.|++++|+++.+.+.+..
T Consensus       107 ~~-~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A          107 AD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             SC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cC-CCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            32 46899999999999877788888899999999999999999999999999999999887654

>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=99.91  E-value=9.2e-25  Score=149.89  Aligned_cols=135  Identities=16%  Similarity=0.214  Sum_probs=98.8

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++.. ...+..++  +.+++||+||++++..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        51 ~~~~~-~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~  126 (192)
T 2b6h_A           51 LGEIV-TTIPTIGFN-VETVEYKN--ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQED  126 (192)
T ss_dssp             SSCCE-EEEEETTEE-EEEEEETT--EEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCG
T ss_pred             hCCcc-ccCCcCcee-EEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhccc
Confidence            44554 457788732 34445554  567779999999999999999999999999999999999999999998887754


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ...+.|+++|+||+|+.+..  ..++....     +...++++++|||++|.|++++|+++++.+.
T Consensus       127 ~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          127 ELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             GGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             ccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            44578999999999996532  22222111     1122456999999999999999999998764

>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=99.91  E-value=2.3e-24  Score=146.54  Aligned_cols=133  Identities=20%  Similarity=0.268  Sum_probs=103.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      ...+.||+|.. ...+.+++  +.+++||+||++++...+..+++++|++++|||+++++++..+..|+..+.......+
T Consensus        41 ~~~~~~t~g~~-~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~  117 (181)
T 1fzq_A           41 ISHITPTQGFN-IKSVQSQG--FKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSC  117 (181)
T ss_dssp             CEEEEEETTEE-EEEEEETT--EEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTT
T ss_pred             CCcccCcCCeE-EEEEEECC--EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcC
Confidence            35678888843 44556664  5567799999999999999999999999999999999999999999888766543467


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHH-----HHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVA-----RQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .|+++|+||+|+.+...  .++..+..     ...++++++|||++|.|++++|+++.+.+.+
T Consensus       118 ~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          118 VPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             CCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             CCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            89999999999975432  23322221     1224679999999999999999999987754

>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=99.91  E-value=2.6e-24  Score=144.26  Aligned_cols=136  Identities=16%  Similarity=0.208  Sum_probs=105.7

Q ss_pred             ccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          5 SYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +.|. .+.||++.. ...+.+++  +.+++||+||++++...+..+++++|++++|||+++++++..+..|+..+.....
T Consensus        30 ~~~~-~~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~  105 (171)
T 1upt_A           30 GEVV-TTIPTIGFN-VETVTYKN--LKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEE  105 (171)
T ss_dssp             SSCC-CCCCCSSEE-EEEEEETT--EEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGG
T ss_pred             CCCC-CcCCcCccc-eEEEEECC--EEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchh
Confidence            4443 467887743 44556664  4567799999999999999999999999999999999999999999888876543


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCCHHHHHH-----HHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVSSMDAQN-----VARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..+.|+++|+||+|+.+...  .++...     .+...+++++++||++|.|++++|+++.+.+.++
T Consensus       106 ~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  170 (171)
T 1upt_A          106 LRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR  170 (171)
T ss_dssp             GTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             hCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHhhc
Confidence            46789999999999975432  222221     1223456799999999999999999999988654

>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=99.91  E-value=5.3e-25  Score=150.06  Aligned_cols=142  Identities=16%  Similarity=0.207  Sum_probs=102.3

Q ss_pred             ccccccccccccceE-EEEEEE---CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh-hhHHHHHHHHHHH
Q psy11289          5 SYFVTDYDPTIEDSY-TKQCVI---DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR-NSFEEIYKFHRQI   79 (159)
Q Consensus         5 ~~f~~~~~pt~~~~~-~~~~~~---~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~-~s~~~~~~~~~~i   79 (159)
                      +.|.+.+.||++..+ ...+.+   ++..+.+++||++|+++|..+++.++++++++++|||++++ .+++.+..|+..+
T Consensus        27 ~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~  106 (184)
T 2zej_A           27 KSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNI  106 (184)
T ss_dssp             ----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHH
T ss_pred             CccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHH
Confidence            357778899998655 444443   34677889999999999998999999999999999999997 5899999999988


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCC---HHHHHHHHHHcCCc----EEEeCCCCCC-CHHHHHHHHHHHHHhccc
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVS---SMDAQNVARQLRIP----YIECSAKVRI-NVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~sa~~~~-~i~~~~~~l~~~~~~~~~  148 (159)
                      ....  .+.|+++||||+|+.+.+.++   .+.+..+++.++++    ++++||++|. +++++++.+.+.+.+.+.
T Consensus       107 ~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          107 KARA--SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             HHHC--TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHCC--
T ss_pred             HhhC--CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhcccc
Confidence            7754  578999999999987644332   23345666667887    9999999997 999999999988866543

>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=99.91  E-value=5.7e-26  Score=168.89  Aligned_cols=146  Identities=14%  Similarity=0.119  Sum_probs=113.5

Q ss_pred             ccccccccccccccceEE----------EEEEECC----eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECC----
Q psy11289          3 IESYFVTDYDPTIEDSYT----------KQCVIDD----IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT----   64 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~----------~~~~~~~----~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~----   64 (159)
                      +++.|.++|.||+++.+.          ..+.+++    +.+++++|||+|+++++++|..|+++++++|+|||++    
T Consensus       142 ~~ri~~~~Y~PT~~D~~~~r~~T~Gi~e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq  221 (354)
T 2xtz_A          142 LKRLSDINYIPTKEDVLYARVRTTGVVEIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQ  221 (354)
T ss_dssp             HHHHHSTTCCCCHHHHHHCCCCCCSEEEEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTC
T ss_pred             HHHHhcCCCCCCchheeeecccccceeeEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECccccc
Confidence            456688999999986542          1223455    6789999999999999999999999999999999998    


Q ss_pred             ------ChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC--C-------------------CHHHHHHHHHH-
Q psy11289         65 ------DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ--V-------------------SSMDAQNVARQ-  116 (159)
Q Consensus        65 ------~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~--~-------------------~~~~~~~~~~~-  116 (159)
                            +.+++++...|+..+.......++|+++++||+|+.+++.  +                   +.+++..++.. 
T Consensus       222 ~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~  301 (354)
T 2xtz_A          222 TLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKK  301 (354)
T ss_dssp             BCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHH
T ss_pred             ccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHH
Confidence                  7889999999999988754446799999999999854321  1                   24566666443 


Q ss_pred             ---------------cCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        117 ---------------LRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       117 ---------------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                                     ..+.+++|||+++.||.++|+++.+.+.+...
T Consensus       302 f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~~I~~~~l  348 (354)
T 2xtz_A          302 FEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDETLRRRNL  348 (354)
T ss_dssp             HHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHHHHHHHHHH
Confidence                           12346899999999999999999998876543

>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=99.91  E-value=2.5e-23  Score=142.21  Aligned_cols=134  Identities=18%  Similarity=0.238  Sum_probs=108.4

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCC-
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR-   85 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~-   85 (159)
                      |...+.||++. ....+.+++  +.+.+||++|++++...+..+++++|++++|||+++++++..+..|+..+...... 
T Consensus        47 ~~~~~~~t~~~-~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~  123 (190)
T 2h57_A           47 QSQNILPTIGF-SIEKFKSSS--LSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIK  123 (190)
T ss_dssp             CCSSCCCCSSE-EEEEEECSS--CEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTT
T ss_pred             CCCCcCCccce-eEEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhc
Confidence            56778888873 355566665  45677999999999999999999999999999999999999999999988876543 


Q ss_pred             -CCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         86 -DEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        86 -~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                       .++|+++|+||+|+.+  ..+.++..+++.     ..+++++++||++|.|++++|+++.+.+.+
T Consensus       124 ~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          124 HRRIPILFFANKMDLRD--AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             TSCCCEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             cCCCeEEEEEeCcCccc--CCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence             5789999999999964  334555555553     235789999999999999999999987643

>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=99.91  E-value=3.6e-23  Score=140.79  Aligned_cols=134  Identities=20%  Similarity=0.249  Sum_probs=106.9

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      ...+.||++.. ...+.+++  +.+++|||||++++...+..+++++|++++|||++++++++.+..|+..+.......+
T Consensus        43 ~~~~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~  119 (186)
T 1ksh_A           43 VDTISPTLGFN-IKTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAG  119 (186)
T ss_dssp             CSSCCCCSSEE-EEEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTT
T ss_pred             CCcccccCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCC
Confidence            56788888844 44555565  4567799999999998999999999999999999999999999999988877544467


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .|+++|+||+|+.+..  ..++..+...     ..+++++++||++|.|++++|+++.+.+.++
T Consensus       120 ~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          120 ATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             CEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            8999999999997543  2333332221     2356799999999999999999999988765

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.90  E-value=2e-24  Score=147.47  Aligned_cols=138  Identities=15%  Similarity=0.160  Sum_probs=106.3

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|. .+.||++.. ...+..++  +.+++|||||++++...+..+++++|++++|||+++++++..+..|+..+....
T Consensus        44 ~~~~~-~~~~t~~~~-~~~~~~~~--~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~  119 (189)
T 2x77_A           44 LGDVV-TTVPTVGVN-LETLQYKN--ISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDED  119 (189)
T ss_dssp             CSCCE-EECSSTTCC-EEEEEETT--EEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCS
T ss_pred             cCCCC-CcCCCCceE-EEEEEECC--EEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhh
Confidence            34454 367888743 34455564  456779999999998888899999999999999999999999999988887765


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...+.|+++|+||+|+.+...  .++....     +...+++++++||++|.|++++|+++.+.+.+.+
T Consensus       120 ~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (189)
T 2x77_A          120 ELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLREQG  186 (189)
T ss_dssp             TTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHHTC
T ss_pred             hcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHHHHHhcc
Confidence            446889999999999965432  2222221     1223467999999999999999999999887654

>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=99.90  E-value=1.2e-23  Score=142.76  Aligned_cols=133  Identities=19%  Similarity=0.256  Sum_probs=104.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.| ..+.||++..+ ..+.+++  +.+++||++|++++..++..+++++|++++|||+++++++..+..|+..+....
T Consensus        43 ~~~~-~~~~~t~~~~~-~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~  118 (181)
T 2h17_A           43 MNEV-VHTSPTIGSNV-EEIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHE  118 (181)
T ss_dssp             TTSC-EEEECCSSSSC-EEEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCG
T ss_pred             cCCC-CccCCcCceee-EEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCh
Confidence            3445 66788888543 4455666  556779999999999999999999999999999999999999999998887754


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHH-----HHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-----RQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...++|+++|+||+|+.+.  ...++..+..     ...+++++++||++|.|++++|+++++.
T Consensus       119 ~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          119 DLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             GGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             hhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            3367899999999998653  3344443332     1234679999999999999999999764

>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=99.90  E-value=9.1e-24  Score=145.23  Aligned_cols=115  Identities=17%  Similarity=0.243  Sum_probs=97.0

Q ss_pred             CCeeEEEEEEeCCCcccchHHH---HHHhhcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMR---EQYMRSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~---~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ++..+.+++||++|+++|....   ..+++++|++|+|||++++  +++..+..|+..+....  .++|+++|+||+|+.
T Consensus        65 ~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~--~~~piilv~nK~Dl~  142 (196)
T 3llu_A           65 NSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN--PDMNFEVFIHKVDGL  142 (196)
T ss_dssp             CTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHC--TTCEEEEEEECGGGS
T ss_pred             CCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcC--CCCcEEEEEeccccC
Confidence            3677889999999999987766   8999999999999999997  77888888888775543  678999999999975


Q ss_pred             C-------cCCCCHHHHHHHHH----HcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        101 H-------QRQVSSMDAQNVAR----QLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       101 ~-------~~~~~~~~~~~~~~----~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +       .+.+...++..+++    .+++++++|||++ .|++++|+.+++.+
T Consensus       143 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          143 SDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             chhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            4       34555666777888    6788999999999 99999999999865

>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=99.90  E-value=2.8e-24  Score=161.66  Aligned_cols=142  Identities=16%  Similarity=0.179  Sum_probs=112.2

Q ss_pred             cccccccccccccceE----------EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC--------
Q psy11289          4 ESYFVTDYDPTIEDSY----------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD--------   65 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~--------   65 (159)
                      ++.+.++|.||+++.+          ...+.+++  +++++|||+|+++++++|..|+++++++|+|||+++        
T Consensus       183 ~ri~~~~Y~PT~~Dil~~r~~TiGi~~~~~~~~~--v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed  260 (402)
T 1azs_C          183 DVIKQDDYVPSDQDLLRCRVLTSGIFETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIRED  260 (402)
T ss_dssp             HHHTCTTCCCCHHHHHHCCCCCCSEEEEEEEETT--EEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTT
T ss_pred             HHhhccccCCccccccccccceeeeEEEEeecCC--ccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccc
Confidence            4556788999887543          12344554  678889999999999999999999999999999999        


Q ss_pred             --hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC---C---------------------------CHHHHHHH
Q psy11289         66 --RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ---V---------------------------SSMDAQNV  113 (159)
Q Consensus        66 --~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~---~---------------------------~~~~~~~~  113 (159)
                        .++|+++..|+..+.......++|+++++||+|+.+.+.   +                           +.+++..+
T Consensus       261 ~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~f  340 (402)
T 1azs_C          261 NQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYF  340 (402)
T ss_dssp             SCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHH
Confidence              899999999999988765456899999999999854321   1                           13556555


Q ss_pred             H-----HH--------cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        114 A-----RQ--------LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       114 ~-----~~--------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +     +.        .++.++++||+++.||.++|+++...+.+..
T Consensus       341 i~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          341 IRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             HHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccccccCcccEEEEEEeecCcCHHHHHHHHHHHHHHHH
Confidence            3     22        2456789999999999999999998887654

>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=99.90  E-value=5.2e-24  Score=155.66  Aligned_cols=129  Identities=18%  Similarity=0.156  Sum_probs=107.2

Q ss_pred             ccccccc-ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHH
Q psy11289          2 KIESYFV-TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~-~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i   79 (159)
                      |+.+.|. ++|.||+|+.+...+..++   ++++||+  +++|.++++.+++++|++|+|||+++++ ++..+.+|+..+
T Consensus        37 ~~~~~f~~~~~~pTiGd~~~~~~~~~~---~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~  111 (301)
T 1u0l_A           37 KLRGKFRLQNLKIYVGDRVEYTPDETG---SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLA  111 (301)
T ss_dssp             EECGGGTTTTCCCCTTCEEEEECCCSS---SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHH
T ss_pred             EEcccccccCCCCCCccEEEEEEcCCC---eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHH
Confidence            4678898 8999999988764433333   5677999  8999999999999999999999999997 788899999877


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ..    .++|+++|+||+|+.+.+.+  ++...+++.++  +++++|||++|.|++++|..+..
T Consensus       112 ~~----~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          112 EK----NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             HH----TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HH----CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            54    47899999999999754332  45677777777  89999999999999999987753

>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=99.90  E-value=2.9e-22  Score=137.32  Aligned_cols=139  Identities=28%  Similarity=0.488  Sum_probs=122.9

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      ...|...+.||++..+ ...+.++|..+.+++||++|++++...+..++++++++++|||.++..+++.+..|+..+...
T Consensus        51 ~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~  130 (191)
T 1oix_A           51 RNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDH  130 (191)
T ss_dssp             HSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             cCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHh
Confidence            4556778889999665 788899999999999999999999888899999999999999999999999988898877664


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .. .+.|+++++||+|+.+.+.+..+++..++...++.++++||+++.|++++|+.+.+.+
T Consensus       131 ~~-~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          131 AD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             SC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cC-CCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            32 4689999999999987777888899999999999999999999999999999998865

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.89  E-value=2.6e-24  Score=157.62  Aligned_cols=131  Identities=14%  Similarity=0.202  Sum_probs=101.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccchH---HHHHHhhcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcC
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA---MREQYMRSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKD   84 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~---~~~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~   84 (159)
                      .+.||+|..+..   + +..+++++|||+|+++|..   .++.|+++++++|+|||++++  +++..+..|+..+.... 
T Consensus        30 ~~~~Tig~~~~~---v-~~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~-  104 (331)
T 3r7w_B           30 YLESTSNPSLEH---F-STLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVN-  104 (331)
T ss_dssp             TCCCCCSCCCEE---E-CSSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHC-
T ss_pred             eecCeeeeeeEE---E-ccEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcC-
Confidence            367899866642   2 3458899999999999964   478999999999999999998  34444444555554443 


Q ss_pred             CCCCcEEEEEeCCCCCCc-------CCCCHHHHHHHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         85 RDEFPMLMVGNKADLDHQ-------RQVSSMDAQNVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                       +++|++++|||+|+..+       +.++.+++.++|+.    ++++++++||++ .||.++|..+++.+.+..
T Consensus       105 -~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~~~  176 (331)
T 3r7w_B          105 -PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIPEL  176 (331)
T ss_dssp             -TTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSSTTH
T ss_pred             -CCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHhhH
Confidence             67999999999999753       35667777788875    678999999998 589999999997766443

>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=99.89  E-value=6.4e-23  Score=139.04  Aligned_cols=138  Identities=15%  Similarity=0.205  Sum_probs=104.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.| ..+.||++.. ...+.+++  +.+++||+||++++...+..+++++|++++|||++++++++.+..|+..+....
T Consensus        40 ~~~~-~~~~~t~~~~-~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~  115 (183)
T 1moz_A           40 IGEV-VTTKPTIGFN-VETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEE  115 (183)
T ss_dssp             CSEE-EEECSSTTCC-EEEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSS
T ss_pred             cCCc-CccCCcCccc-eEEEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcCh
Confidence            3445 5678888844 34556665  556779999999998889999999999999999999999999999998887765


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...+.|+++|+||+|+.+.  ...++.......     .+++++++||++|.|++++|+++.+.+.+++
T Consensus       116 ~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~q  182 (183)
T 1moz_A          116 ELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ  182 (183)
T ss_dssp             TTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             hhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHHHHHhcc
Confidence            4468899999999998653  233443333221     2357999999999999999999999887653

>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=99.89  E-value=2.4e-23  Score=152.97  Aligned_cols=134  Identities=16%  Similarity=0.130  Sum_probs=107.0

Q ss_pred             cccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECC----------ChhhHHHHHHHHHHHHh
Q psy11289         12 DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT----------DRNSFEEIYKFHRQILR   81 (159)
Q Consensus        12 ~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~----------~~~s~~~~~~~~~~i~~   81 (159)
                      .||+|.. ...+.+++  +++++||++|+++++++|..|+++++++|+|||++          +.+++.+...|+..+..
T Consensus       152 ~~TiGi~-~~~~~~~~--v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~  228 (327)
T 3ohm_A          152 VPTTGII-EYPFDLQS--VIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIIT  228 (327)
T ss_dssp             CCCCSEE-EEEEEETT--EEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHT
T ss_pred             CceeeEE-EEEEEeec--eeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhh
Confidence            3445522 33344444  67788999999999999999999999999999665          67788888889888877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcC----------------CCCHHHHHHHHH----------HcCCcEEEeCCCCCCCHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQR----------------QVSSMDAQNVAR----------QLRIPYIECSAKVRINVDQA  135 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~----------~~~~~~~~~sa~~~~~i~~~  135 (159)
                      .....++|+++++||+|+.+++                ..+.+++..+..          ..++.++++||+++.||..+
T Consensus       229 ~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~v  308 (327)
T 3ohm_A          229 YPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFV  308 (327)
T ss_dssp             SGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHH
T ss_pred             hhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHH
Confidence            6555689999999999986433                467888888743          34577899999999999999


Q ss_pred             HHHHHHHHHhccc
Q psy11289        136 FHELVRIVLLHTK  148 (159)
Q Consensus       136 ~~~l~~~~~~~~~  148 (159)
                      |+.+...+.+...
T Consensus       309 F~~v~~~Il~~~l  321 (327)
T 3ohm_A          309 FAAVKDTILQLNL  321 (327)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhH
Confidence            9999999987654

>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=99.88  E-value=5.9e-23  Score=142.75  Aligned_cols=137  Identities=18%  Similarity=0.313  Sum_probs=96.2

Q ss_pred             ccccccccccccccceEEEEEEECCe-eEEEEEEeCCCcccchH-HHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDI-PARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQI   79 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~-~~~~~l~D~~g~~~~~~-~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i   79 (159)
                      +.+.|.+.++|+..+...  +.+++. .+.+++|||||++++.. ++..+++++|++++|||+++.. ++..+..|+..+
T Consensus        28 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~  105 (214)
T 2fh5_B           28 LTGQYRDTQTSITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQV  105 (214)
T ss_dssp             HHSCCCCBCCCCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHH
T ss_pred             hCCCcccccCCcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHH
Confidence            456688888766544433  566654 57788899999999987 8899999999999999999964 566666555444


Q ss_pred             Hhh--cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHH-----------------------------------H-Hc--CC
Q psy11289         80 LRV--KDRDEFPMLMVGNKADLDHQRQVSSMDAQNVA-----------------------------------R-QL--RI  119 (159)
Q Consensus        80 ~~~--~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----------------------------------~-~~--~~  119 (159)
                      ...  ....++|+++|+||+|+.+..... .....+.                                   . .+  ++
T Consensus       106 ~~~~~~~~~~~piilv~nK~Dl~~~~~~~-~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~  184 (214)
T 2fh5_B          106 LIDSMALKNSPSLLIACNKQDIAMAKSAK-LIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKV  184 (214)
T ss_dssp             HHHHHTSTTCCEEEEEEECTTSTTCCCHH-HHHHHHHHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCE
T ss_pred             HhhhhhcccCCCEEEEEECCCCCCcccHH-HHHHHHHHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcE
Confidence            332  122468999999999997544321 1111111                                   1 11  56


Q ss_pred             cEEEeCCCCC------CCHHHHHHHHHHH
Q psy11289        120 PYIECSAKVR------INVDQAFHELVRI  142 (159)
Q Consensus       120 ~~~~~sa~~~------~~i~~~~~~l~~~  142 (159)
                      ++++|||++|      .|++++|+++.+.
T Consensus       185 ~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          185 EFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             EEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             EEEEeeccCCCccccccChHHHHHHHHHh
Confidence            7999999999      9999999999875

>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=99.88  E-value=8.7e-24  Score=157.65  Aligned_cols=144  Identities=18%  Similarity=0.207  Sum_probs=107.5

Q ss_pred             cccccccccccccceE----------EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC--------
Q psy11289          4 ESYFVTDYDPTIEDSY----------TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD--------   65 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~----------~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~--------   65 (159)
                      ++-+.++|.||.++.+          ...+.+++  +.+++|||+|+++++++|..++++++++|||||+++        
T Consensus       167 ~ri~~~~Y~PT~~Dil~~r~~T~Gi~~~~~~~~~--~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed  244 (362)
T 1zcb_A          167 DKLGVPDYIPSQQDILLARRPTKGIHEYDFEIKN--VPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMED  244 (362)
T ss_dssp             HHHTSTTCCCCHHHHHHCCCCCSSEEEEEEEETT--EEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTE
T ss_pred             HHHhcCCCCCChhhhhhccCCccceEEEEeeeCC--eEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECcccccccccc
Confidence            4556778888865432          22344443  667889999999999999999999999999999999        


Q ss_pred             --hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC----------------CCCHHHHHHHHH-----------H
Q psy11289         66 --RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR----------------QVSSMDAQNVAR-----------Q  116 (159)
Q Consensus        66 --~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~-----------~  116 (159)
                        .+++.+...|+..+.......++|+|+++||+|+.+++                .++.+++..++.           .
T Consensus       245 ~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~  324 (362)
T 1zcb_A          245 RQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQ  324 (362)
T ss_dssp             EEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC-
T ss_pred             ccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCC
Confidence              78999999999998875444679999999999985322                267778877762           3


Q ss_pred             cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289        117 LRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus       117 ~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      .++.+++|||++|.||.++|+++...+.+...+
T Consensus       325 ~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~l~  357 (362)
T 1zcb_A          325 RPLYHHFTTAINTENIRLVFRDVKDTILHDNLK  357 (362)
T ss_dssp             -CCEEEECCTTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             CceEEEEEecCCchhHHHHHHHHHHHHHHHHHH
Confidence            357799999999999999999999998876543

>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=99.88  E-value=2.3e-24  Score=154.16  Aligned_cols=138  Identities=22%  Similarity=0.373  Sum_probs=102.6

Q ss_pred             ccccccccccc-cceE-EEE--------------EEECCeeEEEEEEe-----------------------CCCcccchH
Q psy11289          5 SYFVTDYDPTI-EDSY-TKQ--------------CVIDDIPARLDILD-----------------------TAGQEEFSA   45 (159)
Q Consensus         5 ~~f~~~~~pt~-~~~~-~~~--------------~~~~~~~~~~~l~D-----------------------~~g~~~~~~   45 (159)
                      +.|...+.||+ +..+ .+.              ..+++..+.++|||                       ++|+++|.+
T Consensus        54 ~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~  133 (255)
T 3c5h_A           54 DEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLAS  133 (255)
T ss_dssp             TTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEEC
T ss_pred             CccccccCCcccccccceeEeecccccccccccccccCCcEEEEEEEEccccccccccccccccccccccccchhhhhhh
Confidence            56777788886 4322 222              12567888999999                       667777777


Q ss_pred             HHHHHhh---------------------cCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         46 MREQYMR---------------------SGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        46 ~~~~~~~---------------------~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      ++..+++                     ++|++|+|||++++  ++++.+..|+..+.......++|+++|+||+|+.+.
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~  213 (255)
T 3c5h_A          134 AEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVE  213 (255)
T ss_dssp             TTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCH
T ss_pred             hhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEccccccc
Confidence            7777776                     79999999999998  999999999999877632257899999999999765


Q ss_pred             CCCCHHHHHHHHHH-cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        103 RQVSSMDAQNVARQ-LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       103 ~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +.+  +++..+++. .+++++++||++|.|++++|+++++.+.
T Consensus       214 ~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          214 RYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             HHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            444  567777776 4899999999999999999999998763

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.88  E-value=3.9e-23  Score=152.75  Aligned_cols=137  Identities=16%  Similarity=0.216  Sum_probs=98.6

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|.+.+ ||++..+ ..+..++  +.++||||||++++..++..+++++|++|+|||+++++++..+..|+..+....
T Consensus       187 ~~~~~~~~-pT~~~~~-~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~  262 (329)
T 3o47_A          187 LGEIVTTI-PTIGFNV-ETVEYKN--ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAED  262 (329)
T ss_dssp             SSCCEEEE-EETTEEE-EEEEETT--EEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCG
T ss_pred             CCCCCCcc-cccceEE-EEEecCc--EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhh
Confidence            44555444 6777543 2233344  567779999999999999999999999999999999999999998888877655


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH-----HcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR-----QLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...++|+++|+||+|+.+...  .++......     ..+++++++||++|.|++++|++|++.+.++
T Consensus       263 ~~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          263 ELRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             GGTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC-
T ss_pred             ccCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHhc
Confidence            445889999999999875432  222222111     1235699999999999999999999987543

>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=99.87  E-value=4.6e-23  Score=152.05  Aligned_cols=118  Identities=14%  Similarity=0.156  Sum_probs=98.5

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECC----------ChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVT----------DRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~----------~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      +.+++++||++|+++++++|..|+++++++|+|||++          +.+++.+...|+..+.......++|+++++||+
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            4567888999999999999999999999999999998          788999999999998876555689999999999


Q ss_pred             CCCCc---------------CCCCHHHHHHHHHH-c--------------------------CCcEEEeCCCCCCCHHHH
Q psy11289         98 DLDHQ---------------RQVSSMDAQNVARQ-L--------------------------RIPYIECSAKVRINVDQA  135 (159)
Q Consensus        98 D~~~~---------------~~~~~~~~~~~~~~-~--------------------------~~~~~~~sa~~~~~i~~~  135 (159)
                      |+.++               ...+.+++..++.. +                          ++.++++||+++.||..+
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            98431               11246666555432 2                          366899999999999999


Q ss_pred             HHHHHHHHHh
Q psy11289        136 FHELVRIVLL  145 (159)
Q Consensus       136 ~~~l~~~~~~  145 (159)
                      |+.+...+++
T Consensus       319 F~~v~~~Il~  328 (340)
T 4fid_A          319 FMLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999999987

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.86  E-value=2.4e-21  Score=141.93  Aligned_cols=133  Identities=14%  Similarity=0.246  Sum_probs=104.8

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccc-----hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF-----SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~-----~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      .+.||++..+. .+.+++ .+.+++||+||++++     ...+..+++++|++|+|||++++++++.+..|...+.....
T Consensus        34 ~~~~Ti~~~~~-~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~  111 (307)
T 3r7w_A           34 RLGATIDVEHS-HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRK  111 (307)
T ss_dssp             GCCCCCSEEEE-EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHH
T ss_pred             CcCCccceEEE-EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHH
Confidence            45677775553 344544 577888999999988     67888999999999999999999999998777554443221


Q ss_pred             -CCCCcEEEEEeCCCCCC--cCC----CCHHHHHHHHHHcC---CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         85 -RDEFPMLMVGNKADLDH--QRQ----VSSMDAQNVARQLR---IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        85 -~~~~p~ivv~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                       .+++|+++|+||+|+.+  .+.    +..+++..+++.+|   ++++++||++ .|+.++|..++..+..
T Consensus       112 ~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~li~  181 (307)
T 3r7w_A          112 YSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSLIP  181 (307)
T ss_dssp             HCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTTCS
T ss_pred             hCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHHcC
Confidence             25789999999999976  343    55677888999987   6899999999 8999999998876543

>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=99.85  E-value=1.8e-20  Score=125.42  Aligned_cols=123  Identities=13%  Similarity=0.203  Sum_probs=91.7

Q ss_pred             cccccc-ceEEEEEEECCeeEEEEEEeCCCcccch------HHHHHHhh--cCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         11 YDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFS------AMREQYMR--SGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        11 ~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.|++. +.....+.+++.  .+++|||||++++.      .+...+++  +++++++|+|+++.++   ...|+..+.+
T Consensus        32 ~~~~~t~~~~~~~~~~~~~--~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~---~~~~~~~~~~  106 (165)
T 2wji_A           32 NWPGVTVEKKEGEFEYNGE--KFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATALER---NLYLTLQLME  106 (165)
T ss_dssp             -----CCCCCEEEEEETTE--EEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEEEEEEETTCHHH---HHHHHHHHHH
T ss_pred             CCCCcceeeeEEEEEECCc--EEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEEEEEecCCchhH---hHHHHHHHHh
Confidence            334443 444566667765  46779999998774      45566765  8999999999998654   3457666654


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                          .+.|+++|+||+|+...+.++. ++..+++.++++++++||++|.|++++|+++.+.+
T Consensus       107 ----~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          107 ----MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             ----TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             ----cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHHh
Confidence                3689999999999865555543 46788888999999999999999999999998765

>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=99.83  E-value=1.8e-20  Score=127.58  Aligned_cols=137  Identities=15%  Similarity=0.227  Sum_probs=101.4

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCC-----------cccchHHHHHHhhc-CCEEEEEEECCChhhHHH
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAG-----------QEEFSAMREQYMRS-GEGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g-----------~~~~~~~~~~~~~~-~~~ii~v~d~~~~~s~~~   71 (159)
                      .+.|...+.|++.... ..+..+    .+.+|||||           ++++...+..++++ +++++++|++.|+.++..
T Consensus        23 ~~~~~~~~~~~~t~~~-~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~d~~s~~~   97 (190)
T 2cxx_A           23 GKKVRRGKRPGVTRKI-IEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPE   97 (190)
T ss_dssp             SCCCSSSSSTTCTTSC-EEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHH
T ss_pred             CcCCccCCCCCcccee-EEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhccCCEEEEEEcchhhhh
Confidence            4556666777655332 222333    467799999           67788888888887 888888888888888887


Q ss_pred             H-HHHHHH--------HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCc-------EEEeCCCCCCCHHHH
Q psy11289         72 I-YKFHRQ--------ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP-------YIECSAKVRINVDQA  135 (159)
Q Consensus        72 ~-~~~~~~--------i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-------~~~~sa~~~~~i~~~  135 (159)
                      + ..|...        +.......++|+++|+||+|+.+..   .++...+++.++++       ++++||++|.|++++
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  174 (190)
T 2cxx_A           98 IIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERL  174 (190)
T ss_dssp             HHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHH
T ss_pred             HHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHH
Confidence            7 566542        2222222578999999999987644   56778888888874       799999999999999


Q ss_pred             HHHHHHHHHhccc
Q psy11289        136 FHELVRIVLLHTK  148 (159)
Q Consensus       136 ~~~l~~~~~~~~~  148 (159)
                      |+++.+.+.+.+.
T Consensus       175 ~~~l~~~~~~~~~  187 (190)
T 2cxx_A          175 KNRIFEVIRERQG  187 (190)
T ss_dssp             HHHHHHHHHHC--
T ss_pred             HHHHHHhcchhhc
Confidence            9999999876654

>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=99.83  E-value=2.4e-19  Score=125.91  Aligned_cols=128  Identities=14%  Similarity=0.143  Sum_probs=92.2

Q ss_pred             ceEEEEEEECCeeEEEEEEeCCCc------ccc---hHHHHHHhhcCCEEEEEEECCChhhHH--HHHHHHHHHHhhcCC
Q psy11289         17 DSYTKQCVIDDIPARLDILDTAGQ------EEF---SAMREQYMRSGEGFLLVFSVTDRNSFE--EIYKFHRQILRVKDR   85 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~l~D~~g~------~~~---~~~~~~~~~~~~~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~   85 (159)
                      +.....+..++  ..+.+|||||+      ++.   ...+..++..+|++|+|||++++.++.  ....|+..+....  
T Consensus        65 ~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~--  140 (228)
T 2qu8_A           65 NLYVGHFDHKL--NKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVF--  140 (228)
T ss_dssp             CEEEEEEEETT--EEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC--
T ss_pred             eeeeeeeecCC--CeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhh--
Confidence            33344444455  45667999999      442   122345578899999999999988864  2335666655432  


Q ss_pred             CCCcEEEEEeCCCCCCcCCCCHH---HHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSSM---DAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .+.|+++|+||+|+.+.+.+...   ....++...+  ++++++||++|.|++++|+++++.+.+.+.
T Consensus       141 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  208 (228)
T 2qu8_A          141 SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKNDQA  208 (228)
T ss_dssp             -CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHHHH
Confidence            47899999999999877777654   4556677777  889999999999999999999998876553

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.83  E-value=9e-21  Score=148.20  Aligned_cols=140  Identities=16%  Similarity=0.147  Sum_probs=102.5

Q ss_pred             ccccccccccccccceEEEE-------EEE--CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHH
Q psy11289          3 IESYFVTDYDPTIEDSYTKQ-------CVI--DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIY   73 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~-------~~~--~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~   73 (159)
                      +.+.|.+.+.||++..+...       +.+  ++..+.+.+||+||++.+..++..+++++|++|+|||+++.   +.+.
T Consensus        62 ~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~---~~~~  138 (535)
T 3dpu_A           62 IGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD---SNKH  138 (535)
T ss_dssp             HC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG---GGHH
T ss_pred             hcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc---hhHH
Confidence            34567788899999776332       222  34467788899999999999999999999999999999875   4556


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         74 KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        74 ~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .|+..+....  .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++++++.+.+.+..
T Consensus       139 ~~~~~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~~~  210 (535)
T 3dpu_A          139 YWLRHIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPD  210 (535)
T ss_dssp             HHHHHHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----CTTHHHHHHHHHTCTT
T ss_pred             HHHHHHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCHHHHHHHHHHHHhccc
Confidence            7888887775  46899999999999888888888888899899999999999999999999999999886543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.83  E-value=2.9e-20  Score=125.24  Aligned_cols=133  Identities=19%  Similarity=0.252  Sum_probs=97.5

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHH
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQI   79 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i   79 (159)
                      .+.|...+.|++...+ ...+.+++..+  .+|||||++++..++..+++.+|++++|||+++   +.+++.+    ..+
T Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l----~~~  103 (178)
T 2lkc_A           30 HSKVTEQEAGGITQHIGAYQVTVNDKKI--TFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAI----NHA  103 (178)
T ss_dssp             TTCSSCSSCCSSSTTCCCCEEEETTEEE--EESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHH----HHH
T ss_pred             CCccccCCCCceeEeeeEEEEEeCCceE--EEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHH----HHH
Confidence            4566667777776443 56677788765  569999999998888888999999999999998   4444433    222


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-------C--CcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-------R--IPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-------~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ..    .++|+++|+||+|+.+.   ..++........       +  ++++++||++|.|++++|+++++.+...+.+
T Consensus       104 ~~----~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~~~  175 (178)
T 2lkc_A          104 KA----ANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEMEELK  175 (178)
T ss_dssp             GG----GSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHHTTTT
T ss_pred             Hh----CCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhhhccc
Confidence            21    46899999999998653   233333333222       2  4799999999999999999999988766544

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.81  E-value=2.4e-19  Score=121.94  Aligned_cols=128  Identities=13%  Similarity=0.212  Sum_probs=97.7

Q ss_pred             ccccccc-ceEEEEEEECCeeEEEEEEeCCCcccch------HHHHHHhh--cCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289         10 DYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFS------AMREQYMR--SGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus        10 ~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      .+.|++. +.....+..++.  .+++|||||++++.      .++..++.  .++++++|+|.++   ++....|+..+.
T Consensus        35 ~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~---~~~~~~~~~~~~  109 (188)
T 2wjg_A           35 GNWPGVTVEKKEGEFEYNGE--KFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLVVNIVDATA---LERNLYLTLQLM  109 (188)
T ss_dssp             EECTTSCCEEEEEEEEETTE--EEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEEEEEEEGGG---HHHHHHHHHHHH
T ss_pred             cCCCCeeccceEEEEEeCCc--EEEEEECCCcCccccccHHHHHHHHHHhccCCCEEEEEecchh---HHHHHHHHHHHH
Confidence            3344444 444666777764  46679999998874      45667765  4999999999876   455567777665


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .    .+.|+++|+||+|+...+.+. .+...+++.++++++++||++|.|++++|+++.+.+.+..
T Consensus       110 ~----~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          110 E----MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             T----TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHHTTC-
T ss_pred             h----cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHHHHHHHHhcc
Confidence            4    468999999999987655554 3567888889999999999999999999999999886654

>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=99.80  E-value=2.2e-19  Score=122.77  Aligned_cols=133  Identities=14%  Similarity=0.222  Sum_probs=85.3

Q ss_pred             cccccccccccccceE-EEEEEECCeeEEEEEEeCCC----------cccchHHHHHHhhcC---CEEEEEEECCChhhH
Q psy11289          4 ESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAG----------QEEFSAMREQYMRSG---EGFLLVFSVTDRNSF   69 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g----------~~~~~~~~~~~~~~~---~~ii~v~d~~~~~s~   69 (159)
                      .+.|...+.++.+... ......++   .+.+|||||          ++.+..++..+++.+   |++++|+|++++.++
T Consensus        45 ~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~  121 (195)
T 1svi_A           45 NRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSN  121 (195)
T ss_dssp             TC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCH
T ss_pred             CCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCH
Confidence            3445566667666333 33334444   366799999          778888888888877   999999999998777


Q ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH--HHHHH-HHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         70 EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS--MDAQN-VARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        70 ~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .... ++..+..    .+.|+++|+||+|+.+.+.+..  ++..+ ++...+++++++||++|.|++++|+++.+.+.
T Consensus       122 ~~~~-~~~~~~~----~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          122 DDVQ-MYEFLKY----YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             HHHH-HHHHHHH----TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHH-HHHHHHH----cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence            6643 1222222    5689999999999976554422  22222 22223578999999999999999999998763

>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=99.80  E-value=5e-20  Score=124.21  Aligned_cols=126  Identities=25%  Similarity=0.288  Sum_probs=93.5

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH--------HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM--------REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ...+++|+.+.+...+.+++..  +++|||||++++...        ...+++++|++++|||++++.++.. ..|+..+
T Consensus        32 ~~~~~~~t~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~  108 (172)
T 2gj8_A           32 VTDIAGTTRDVLREHIHIDGMP--LHIIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDP-AEIWPEF  108 (172)
T ss_dssp             CCSSTTCCCSCEEEEEEETTEE--EEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSH-HHHCHHH
T ss_pred             eeCCCCceeceeeEEEEECCeE--EEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHH
Confidence            4556666667777888888876  566999999753211        1245789999999999999888763 5777777


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .+... .++|+++|+||+|+.+...       .++...+++++++||++|.|++++|+++.+.+.
T Consensus       109 ~~~~~-~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          109 IARLP-AKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             HHHSC-TTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             HHhcc-cCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            66542 4789999999999854211       122234678999999999999999999988764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.80  E-value=1.8e-19  Score=119.45  Aligned_cols=124  Identities=15%  Similarity=0.118  Sum_probs=85.7

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCccc-------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE-------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~-------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ...+++++.+.....+..++..  +.+||+||+..       +...+..+++.+|++++|+|++++.+...  .|+....
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~--~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~--~~~~~~~  104 (161)
T 2dyk_A           29 VADVPGVTRDLKEGVVETDRGR--FLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQAD--YEVAEYL  104 (161)
T ss_dssp             ---------CCEEEEEEETTEE--EEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHH--HHHHHHH
T ss_pred             ccCCCCceecceEEEEEeCCce--EEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhH--HHHHHHH
Confidence            3445555556666777777775  56699999987       34566778899999999999998644322  2233332


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..   .+.|+++|+||+|+.+..    ++..+++ .+++ +++++||++|.|++++|+++++.+
T Consensus       105 ~~---~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          105 RR---KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             HH---HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBSHHHHHHHHHHHC
T ss_pred             Hh---cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCChHHHHHHHHHhC
Confidence            22   467999999999987542    2334555 6787 799999999999999999998764

>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=99.79  E-value=3.3e-19  Score=136.95  Aligned_cols=137  Identities=16%  Similarity=0.181  Sum_probs=100.9

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCC----------cccchHHHHH-HhhcCCEEEEEEECCChhhHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAG----------QEEFSAMREQ-YMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g----------~~~~~~~~~~-~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      .+...+++|+.+.+...+..++..  ++||||||          +++|..+... +++.+|++++|+|+++..+... ..
T Consensus       221 ~~~~~~~gtt~~~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llviD~~~~~~~~~-~~  297 (456)
T 4dcu_A          221 VIVSNVAGTTRDAVDTSFTYNQQE--FVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQD-KR  297 (456)
T ss_dssp             EEECC------CTTSEEEEETTEE--EEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHH-HH
T ss_pred             cccCCCCCeEEEEEEEEEEECCce--EEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCEEEEEEeCCCCcCHHH-HH
Confidence            356677777777767777888875  55699999          6777776554 7899999999999988544322 34


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-----CCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-----RIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      |...+..    .++|+++|+||+|+.+.+..+.++..+.++..     +++++++||++|.|++++|+++.+.+......
T Consensus       298 ~~~~~~~----~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~~~  373 (456)
T 4dcu_A          298 IAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHSLR  373 (456)
T ss_dssp             HHHHHHH----TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHTCC
T ss_pred             HHHHHHH----cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHhccc
Confidence            4444444    56899999999999877777777777776654     58899999999999999999999887655433

>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=99.79  E-value=5.2e-18  Score=124.28  Aligned_cols=131  Identities=15%  Similarity=0.093  Sum_probs=102.3

Q ss_pred             ccccccccceEEEEEEEC-CeeEEEEEEeCCCcccch----------HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVID-DIPARLDILDTAGQEEFS----------AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~----------~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      ...++|+..........+ +.+  +.||||||+.++.          ..+..+++++|++++|+|++++.+..+...|+.
T Consensus        39 s~~~~tT~~~~~~~~~~~~~~~--i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~  116 (308)
T 3iev_A           39 SPKAGTTRMRVLGVKNIPNEAQ--IIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQN  116 (308)
T ss_dssp             CSSSCCCCSCEEEEEEETTTEE--EEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH
T ss_pred             CCCCCceeeEEEEEEecCCCCe--EEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHH
Confidence            445555555555555555 555  5669999996543          566778899999999999999988888777777


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+..    .+.|+++|+||+|+........+....+++.++  .+++++||++|.|++++|+++.+.+.+
T Consensus       117 ~l~~----~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          117 FIKP----LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYLPE  182 (308)
T ss_dssp             HTGG----GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHSCB
T ss_pred             HHHh----cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhCcc
Confidence            7655    468999999999997444455667777888876  789999999999999999999988754

>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=99.78  E-value=2.1e-18  Score=123.45  Aligned_cols=127  Identities=13%  Similarity=0.190  Sum_probs=95.3

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchH------HHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA------MREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      .+++++++-+.....+..++.  .+.+||+||+..+.+      +...++  .++|++++|+|+++.++..   .|..++
T Consensus        32 ~~~~pg~tv~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~~---~~~~~l  106 (258)
T 3a1s_A           32 VANWPGVTVEKKEGVFTYKGY--TINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQSL---YLLLEI  106 (258)
T ss_dssp             EEECTTSCCEEEEEEEEETTE--EEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHHH---HHHHHH
T ss_pred             ccCCCCceEEEEEEEEEECCe--EEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhHH---HHHHHH
Confidence            344554444444555555554  566699999987753      345665  5899999999999976543   355555


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ..    .++|+++|+||+|+.+.+.+.. +...+++.+|++++++||++|.|++++|+++.+.+.
T Consensus       107 ~~----~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          107 LE----MEKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             HT----TTCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             Hh----cCCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            44    4689999999999876555553 467889999999999999999999999999998764

>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=99.78  E-value=5.3e-19  Score=126.42  Aligned_cols=126  Identities=15%  Similarity=0.165  Sum_probs=96.1

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchH----------HHHHHh--hcCCEEEEEEECCChhhHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA----------MREQYM--RSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----------~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      .++++++++.+.....+..++..  +.+|||||...+.+          +...++  +++|++++|+|+++.++...+..
T Consensus        27 ~v~~~pg~Tv~~~~~~~~~~~~~--~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~  104 (256)
T 3iby_A           27 RVGNWPGVTVEKKTGEFLLGEHL--IEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTS  104 (256)
T ss_dssp             EEEECTTSSSEEEEEEEEETTEE--EEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHH
T ss_pred             CccCCCCceEEEEEEEEEECCeE--EEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHH
Confidence            34556555556667777888875  55699999987653          456677  89999999999999776655443


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+   ..    .++|+++|+||+|+.+.+.+.. ....+++.+|++++++||++|.|++++|+++.+.
T Consensus       105 ~l---~~----~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          105 QL---FE----LGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             HH---TT----SCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             HH---HH----cCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            32   22    4689999999999865554433 3456888899999999999999999999999876

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.77  E-value=6.2e-19  Score=134.73  Aligned_cols=133  Identities=17%  Similarity=0.198  Sum_probs=95.2

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCc----------ccchHHHH-HHhhcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQ----------EEFSAMRE-QYMRSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~----------~~~~~~~~-~~~~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      ..++++|+.+.+...+..++..  ++||||||+          ++|..+.. .+++.+|++++|+|++++.++++. .|+
T Consensus       203 ~~~~~gtT~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~llv~D~~~~~s~~~~-~~~  279 (436)
T 2hjg_A          203 VSNVAGTTRDAVDTSFTYNQQE--FVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEVVAVVLDGEEGIIEQDK-RIA  279 (436)
T ss_dssp             EC---------CCEEEEETTEE--EEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSEEEEEEETTTCCCHHHH-HHH
T ss_pred             ecCCCCceeeeeEEEEEECCeE--EEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCEEEEEEcCCcCCcHHHH-HHH
Confidence            5666777777777777888876  456999998          56655544 478899999999999998888775 566


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH-HHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ-NVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..+..    .++|+++|+||+|+.+.+..+.++.. .+.+.    .+++++++||++|.|++++|+.+.+.+....
T Consensus       280 ~~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          280 GYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             HHHHH----TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             HHHHH----cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHHhh
Confidence            66544    56899999999999876665444432 23333    3688999999999999999999998876544

>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=99.77  E-value=1.6e-18  Score=124.95  Aligned_cols=128  Identities=16%  Similarity=0.252  Sum_probs=96.5

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccch------HHHHHHhh--cCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS------AMREQYMR--SGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------~~~~~~~~--~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      .+++++++++-+....  .++. ...+++|||||++++.      .++..++.  ++|++++|+|+++.++.   ..|..
T Consensus        28 ~~v~~~pg~tv~~~~~--~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~---~~~~~  101 (272)
T 3b1v_A           28 QRVGNWPGVTVERKSG--LVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERN---LYLTT  101 (272)
T ss_dssp             CCCCSSSCCCCSCEEE--ECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHH---HHHHH
T ss_pred             CcccCCCCCcEEEEEE--EEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhH---HHHHH
Confidence            3566776554443332  3344 4567779999998875      46677776  69999999999987654   34555


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ++.+    .++|+++|+||+|+.+.+.+. .+...+++.+|++++++||++|.|++++|+++.+.+.
T Consensus       102 ~l~~----~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~~  163 (272)
T 3b1v_A          102 QLIE----TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHTTT  163 (272)
T ss_dssp             HHHH----TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHHHHHSCT
T ss_pred             HHHh----cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHHHHHHHh
Confidence            5554    468999999999987655554 3567888899999999999999999999999988653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.74  E-value=1.5e-17  Score=113.41  Aligned_cols=107  Identities=11%  Similarity=0.126  Sum_probs=80.2

Q ss_pred             EEEEeCCC----------cccchHHHHHHhhcC---CEEEEEEECCChhhH--HHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         32 LDILDTAG----------QEEFSAMREQYMRSG---EGFLLVFSVTDRNSF--EEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        32 ~~l~D~~g----------~~~~~~~~~~~~~~~---~~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      +.+|||||          ++.+..++..+++.+   |++++|+|++++.+.  ..+..|+..       .+.|+++|+||
T Consensus        70 ~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~-------~~~p~i~v~nK  142 (195)
T 3pqc_A           70 YYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS-------LNIPFTIVLTK  142 (195)
T ss_dssp             EEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-------TTCCEEEEEEC
T ss_pred             EEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH-------cCCCEEEEEEC
Confidence            45699999          677788888888776   999999999876433  333344432       36899999999


Q ss_pred             CCCCCcCC--CCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         97 ADLDHQRQ--VSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        97 ~D~~~~~~--~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +|+.+...  ...++...++...+ ++++++||++|.|++++|+++.+.+.+
T Consensus       143 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          143 MDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             GGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             hhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            99865332  22344556666544 789999999999999999999988743

>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=99.74  E-value=1.3e-17  Score=128.35  Aligned_cols=131  Identities=18%  Similarity=0.141  Sum_probs=78.2

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHH--------HhhcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQ--------YMRSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~--------~~~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      .++.++++|+.+.+...+.++|.+  +.+|||||+.++...++.        +++++|++++|+|++++.++..+..+..
T Consensus       259 a~vs~~~gtT~d~~~~~i~~~g~~--l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~  336 (476)
T 3gee_A          259 AIVSHMPGTTRDYIEECFIHDKTM--FRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRE  336 (476)
T ss_dssp             --------------CEEEEETTEE--EEEEC--------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHH
T ss_pred             cccCCCCCceEEEEEEEEEECCeE--EEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHH
Confidence            356777778777777788888876  555999999876654433        5789999999999999888754333322


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .+ ...  .++|+++|+||+|+......   ....+++....+++++||++|.|++++++++.+.+.
T Consensus       337 ~l-~~l--~~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          337 LK-AAH--PAAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             HH-HHC--TTSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             HH-Hhc--CCCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            22 222  36899999999999765433   223444442478999999999999999999999886

>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=99.74  E-value=5.2e-19  Score=123.09  Aligned_cols=104  Identities=18%  Similarity=0.313  Sum_probs=78.6

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhc----CCEEEEEEECC-ChhhHHHHHHHHHHHHhhcC---CCCCcEEEEEeCCCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRS----GEGFLLVFSVT-DRNSFEEIYKFHRQILRVKD---RDEFPMLMVGNKADL   99 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~----~~~ii~v~d~~-~~~s~~~~~~~~~~i~~~~~---~~~~p~ivv~nK~D~   99 (159)
                      ..+.+++||+||++++...+..+++.    +|++++|||++ +++++..+..|+..+.....   ..++|+++|+||+|+
T Consensus        53 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  132 (218)
T 1nrj_B           53 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  132 (218)
T ss_dssp             GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHh
Confidence            34557779999999999989999887    89999999999 88999999999888876532   257899999999999


Q ss_pred             CCcCCCC------HHHHHHHHHHcCCcEEEeCCCCCCC
Q psy11289        100 DHQRQVS------SMDAQNVARQLRIPYIECSAKVRIN  131 (159)
Q Consensus       100 ~~~~~~~------~~~~~~~~~~~~~~~~~~sa~~~~~  131 (159)
                      ...+.+.      .++...++...+++++++||++|.+
T Consensus       133 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          133 FTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            8766544      3456677777778899999998764

>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=99.74  E-value=4.8e-18  Score=122.55  Aligned_cols=127  Identities=12%  Similarity=0.165  Sum_probs=93.0

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccch----------HHHHHHh--hcCCEEEEEEECCChhhHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS----------AMREQYM--RSGEGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~----------~~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      +.++++++.+.....+..++..+  .+|||||+..+.          .....++  +++|++++|+|+++.++...+..+
T Consensus        30 v~~~~g~t~~~~~~~~~~~~~~~--~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~~~~~  107 (274)
T 3i8s_A           30 VGNWAGVTVERKEGQFSTTDHQV--TLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQ  107 (274)
T ss_dssp             EEECTTSSSEEEEEEEECSSCEE--EEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHHHHHH
T ss_pred             cCCCCCeeEEEEEEEEEeCCCce--EEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHHHHHH
Confidence            34455555555567777777665  559999998765          2233443  699999999999997665544443


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                         +.+    .++|+++|+||+|+.+.+.+.. ....+++.+|++++++||++|.|++++++++.+.+.
T Consensus       108 ---l~~----~~~p~ivv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          108 ---LLE----LGIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             ---HHH----HTCCEEEEEECHHHHHHTTEEE-CHHHHHHHHTSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             ---HHh----cCCCEEEEEECccchhhhhHHH-HHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence               333    2679999999999865444322 346788889999999999999999999999987654

>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=99.72  E-value=1.4e-16  Score=122.78  Aligned_cols=128  Identities=21%  Similarity=0.171  Sum_probs=97.4

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcc-cch--------HHHHHHhhcCCEEEEEEECCChhhHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE-EFS--------AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH   76 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~-~~~--------~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~   76 (159)
                      .++.++++|+.+.....+.+++.++  .+|||+|.. .+.        .....+++.+|++|+|+|++++.++++.. ++
T Consensus       269 a~vs~~~gTT~d~~~~~i~~~g~~~--~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~-il  345 (482)
T 1xzp_A          269 AIVTDIPGTTRDVISEEIVIRGILF--RIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRK-IL  345 (482)
T ss_dssp             CCCCCSSCCSSCSCCEEEEETTEEE--EEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHH-HH
T ss_pred             CccCCCCCeeeeeEEEEEecCCeEE--EEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHH-HH
Confidence            4577888888888778888888775  559999997 543        23456789999999999999988876643 22


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..    .  .++|+++|+||+|+.+.  ++.++...++. .+++++++||++|.|++++++++.+.+..
T Consensus       346 ~~----l--~~~piivV~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          346 ER----I--KNKRYLVVINKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             HH----H--TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             HH----h--cCCCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            22    2  36799999999999653  44444444432 34789999999999999999999997663

>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=99.72  E-value=7.2e-17  Score=116.17  Aligned_cols=128  Identities=13%  Similarity=0.165  Sum_probs=95.3

Q ss_pred             cccccc-ceEEEEEEECCeeEEEEEEeCCCcccchH------HHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         11 YDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSA------MREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        11 ~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~------~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ..|++. +.....+..++..  +.+||+||+..+..      .+..++  .++|++++|+|+++.+.   ...|..++..
T Consensus        32 ~~~~~t~~~~~~~~~~~~~~--~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~---~~~~~~~~~~  106 (271)
T 3k53_A           32 NWPGVTVEKKEGIMEYREKE--FLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLMR---NLFLTLELFE  106 (271)
T ss_dssp             ECTTSSCEEEEEEEEETTEE--EEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHHH---HHHHHHHHHH
T ss_pred             CCCCeEEEeeEEEEEECCce--EEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcchh---hHHHHHHHHh
Confidence            334444 4446667777776  55699999987755      566666  68999999999998643   3344445544


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .   ...|+++|+||+|+.+.+.+.. ....+++.+|++++++||++|.|++++|+.+...+....
T Consensus       107 ~---~~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~~~~~~  168 (271)
T 3k53_A          107 M---EVKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVEELKRMIALMAEGKV  168 (271)
T ss_dssp             T---TCCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHHHHHHHHHHHHHTCC
T ss_pred             c---CCCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHHHhccc
Confidence            2   2389999999999865444443 267788899999999999999999999999999876543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.71  E-value=2.3e-16  Score=124.30  Aligned_cols=115  Identities=23%  Similarity=0.308  Sum_probs=94.3

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++..+.+....|.... .    .++|+++++||+|+.+.+  
T Consensus        67 ~g~~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~-~----~~ipiIvViNKiDl~~a~--  139 (599)
T 3cb4_D           67 DGETYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAM-E----MDLEVVPVLNKIDLPAAD--  139 (599)
T ss_dssp             TSCEEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHH-H----TTCEEEEEEECTTSTTCC--
T ss_pred             CCCeEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH-H----CCCCEEEeeeccCccccc--
Confidence            566788999999999999999999999999999999999987777766665443 2    467999999999997543  


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..+...++++.+++.   ++++||++|.|++++++++.+.+....
T Consensus       140 ~~~v~~ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p~  184 (599)
T 3cb4_D          140 PERVAEEIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIPPPE  184 (599)
T ss_dssp             HHHHHHHHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCCCcc
Confidence            233456677777764   999999999999999999998876544

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.70  E-value=1.1e-16  Score=111.61  Aligned_cols=115  Identities=12%  Similarity=0.109  Sum_probs=77.6

Q ss_pred             eEEEEEEeCCC----------cccchHHHHHHhhc---CCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEe
Q psy11289         29 PARLDILDTAG----------QEEFSAMREQYMRS---GEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN   95 (159)
Q Consensus        29 ~~~~~l~D~~g----------~~~~~~~~~~~~~~---~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~n   95 (159)
                      ...+.||||||          ++.+..+...+++.   +|++++|+|++++.+... ..|+..+..    .++|+++|+|
T Consensus        78 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~-~~~~~~l~~----~~~p~i~v~n  152 (223)
T 4dhe_A           78 EPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELD-RRMIEWFAP----TGKPIHSLLT  152 (223)
T ss_dssp             SCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHH-HHHHHHHGG----GCCCEEEEEE
T ss_pred             CCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHH-HHHHHHHHh----cCCCEEEEEe
Confidence            34566799999          45556677777776   788999999988544222 234444433    4679999999


Q ss_pred             CCCCCCcCCCC--HHHHHHHHHH-------cCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         96 KADLDHQRQVS--SMDAQNVARQ-------LRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        96 K~D~~~~~~~~--~~~~~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      |+|+.......  .+...+....       .+++++++||++|.|++++|+++.+.+.....
T Consensus       153 K~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~~  214 (223)
T 4dhe_A          153 KCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPAAA  214 (223)
T ss_dssp             CGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC----
T ss_pred             ccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccCC
Confidence            99987533321  1111222222       45679999999999999999999998865543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.70  E-value=2.4e-17  Score=125.15  Aligned_cols=128  Identities=16%  Similarity=0.145  Sum_probs=92.8

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH-------HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM-------REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.+|+.+...+.+..++.. .+.+|||||++++..+       +..+++++|++|+|+|++..+.   ...|+..+.+
T Consensus        63 ~~~~gtT~d~~~~~~~~~~~~-~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~~~---~~~~l~~l~~  138 (423)
T 3qq5_A           63 SDYAGTTTDPVYKSMELHPIG-PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPY---EDDVVNLFKE  138 (423)
T ss_dssp             -------CCCCEEEEEETTTE-EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCCHH---HHHHHHHHHH
T ss_pred             CCCCCeeeeeEEEEEEECCCC-eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCChHH---HHHHHHHHHh
Confidence            445555556556677776542 5667999999876543       4567889999999999943333   3456666655


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                          .++|+++|+||+|+...+..  +....+++.++++++++||++|.|++++|+++.+.+.+.
T Consensus       139 ----~~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          139 ----MEIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             ----TTCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             ----cCCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHhhhhh
Confidence                36899999999999765554  566677777889999999999999999999999988544

>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=99.70  E-value=2e-16  Score=120.96  Aligned_cols=129  Identities=18%  Similarity=0.214  Sum_probs=87.0

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCccc---------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE---------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~---------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      +++++++++.+.....+.+++..+  ++|||||.+.         +...+..+++++|++++|+|++++.+..+  .++.
T Consensus        28 ~v~~~~g~T~d~~~~~~~~~~~~~--~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d--~~i~  103 (439)
T 1mky_A           28 IVEDEEGVTRDPVQDTVEWYGKTF--KLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKED--ESLA  103 (439)
T ss_dssp             ----------CCSEEEEEETTEEE--EEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHH--HHHH
T ss_pred             eecCCCCCccceeeEEEEECCeEE--EEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHH--HHHH
Confidence            466777777777788888898875  5599999764         34567788999999999999988654432  2222


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH-HHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA-QNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .+.+.   .++|+++|+||+|+.+.  . ..+. .+++ .+|+ +++++||++|.|+.++++++...+.+.
T Consensus       104 ~~l~~---~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          104 DFLRK---STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             HHHHH---HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHH---cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            22222   36799999999997532  1 1222 3443 5677 699999999999999999999988643

>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=99.69  E-value=4e-16  Score=122.80  Aligned_cols=115  Identities=21%  Similarity=0.309  Sum_probs=94.0

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV  105 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~  105 (159)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++..+.+....|.... .    .++|+++++||+|+....  
T Consensus        69 dg~~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~-~----~~ipiIvviNKiDl~~a~--  141 (600)
T 2ywe_A           69 DGNTYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAV-E----QDLVIIPVINKIDLPSAD--  141 (600)
T ss_dssp             TSCEEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHH-H----TTCEEEEEEECTTSTTCC--
T ss_pred             CCCeEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHH-H----CCCCEEEEEeccCccccC--
Confidence            566788999999999999998999999999999999999988877777665443 2    468999999999987533  


Q ss_pred             CHHHHHHHHHHcCCc---EEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        106 SSMDAQNVARQLRIP---YIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       106 ~~~~~~~~~~~~~~~---~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ..+...++++.+++.   ++++||++|.|++++++++++.+....
T Consensus       142 ~~~v~~el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p~  186 (600)
T 2ywe_A          142 VDRVKKQIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIPPPK  186 (600)
T ss_dssp             HHHHHHHHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSCCCC
T ss_pred             HHHHHHHHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhccccc
Confidence            233445666777764   999999999999999999998876544

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.69  E-value=6.2e-16  Score=115.36  Aligned_cols=130  Identities=17%  Similarity=0.183  Sum_probs=95.1

Q ss_pred             cccccceEEEEEEECCeeEEEEEEeCCCcccch---------HHHHHHhhcCCEEEEEEECCChh--hHHHHHHHHHHHH
Q psy11289         12 DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS---------AMREQYMRSGEGFLLVFSVTDRN--SFEEIYKFHRQIL   80 (159)
Q Consensus        12 ~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---------~~~~~~~~~~~~ii~v~d~~~~~--s~~~~~~~~~~i~   80 (159)
                      +.++.......+..++.  .+.+|||||.....         .....+...+|++++|+|++++.  ++.....|+..+.
T Consensus       198 ~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~  275 (357)
T 2e87_A          198 PFTTRGINVGQFEDGYF--RYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVH  275 (357)
T ss_dssp             TTCSSCEEEEEEEETTE--EEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHH
T ss_pred             CCeeeceeEEEEEecCc--eEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHH
Confidence            33333333333444443  46779999985431         12223445799999999999887  7788888988887


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ...  .+.|+++|+||+|+.+...  .++...++...+++++++||++|.|++++++++.+.+....
T Consensus       276 ~~~--~~~piilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~~  338 (357)
T 2e87_A          276 GEF--KDLPFLVVINKIDVADEEN--IKRLEKFVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPLA  338 (357)
T ss_dssp             HHT--TTSCEEEEECCTTTCCHHH--HHHHHHHHHHTTCCCEECBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             Hhc--CCCCEEEEEECcccCChHH--HHHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHHHHHHHHHH
Confidence            764  2789999999999875433  24456677778899999999999999999999999886543

>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=99.69  E-value=9.2e-17  Score=117.33  Aligned_cols=128  Identities=13%  Similarity=-0.007  Sum_probs=94.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh-hHHHHHHHHHHHHhh
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRV   82 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~   82 (159)
                      .+.|...+.|++||.+......++.-+.   .+  .++++..+.+.+++++|++++|+|+++|+ ++..+.+|+..+.. 
T Consensus        35 ~~~~~~~~~~~vGD~V~~~~~~~~~g~I---~~--i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~-  108 (302)
T 2yv5_A           35 RGKVLKKTKIYAGDYVWGEVVDPNTFAI---EE--VEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY-  108 (302)
T ss_dssp             CSSSTTSSCCCBTCEEEEEEEETTEEEE---EE--ECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH-
T ss_pred             cCCcccCCCCcCceEEEEEEccCCeEEE---Ee--eCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh-
Confidence            3445444448888776544443333222   22  25677777778999999999999999986 89888999886654 


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCC-HHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVS-SMDAQNVARQLRIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                         .++|+++|+||+|+.+...++ .++...+++..|++++++||++|.|++++++.+.
T Consensus       109 ---~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          109 ---FKVEPVIVFNKIDLLNEEEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             ---TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             ---CCCCEEEEEEcccCCCccccHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhhcc
Confidence               578999999999997543222 3445666777899999999999999999988764

>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=99.68  E-value=3.7e-16  Score=118.29  Aligned_cols=114  Identities=17%  Similarity=0.217  Sum_probs=87.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--H
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--S  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~  107 (159)
                      ..+.+|||||+++|...+..++..+|++++|+|++++.++.....|+..+...   ...|+++++||+|+.+.....  .
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~  151 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII---GVKNLIIVQNKVDVVSKEEALSQY  151 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHc---CCCCEEEEEECccccchHHHHHHH
Confidence            57888999999999999999999999999999999987777777777655443   235899999999987533211  1


Q ss_pred             HHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        108 MDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       108 ~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ++..++....   +++++++||++|.|++++++.+.+.+...
T Consensus       152 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          152 RQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhCCCC
Confidence            1222222222   57899999999999999999999876543

>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=99.68  E-value=1.4e-16  Score=117.99  Aligned_cols=134  Identities=18%  Similarity=0.240  Sum_probs=98.3

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCccc----chHHHHHHhh---cCCEEEEEEECCC---hhhHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE----FSAMREQYMR---SGEGFLLVFSVTD---RNSFEEIYKFHRQ   78 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~----~~~~~~~~~~---~~~~ii~v~d~~~---~~s~~~~~~~~~~   78 (159)
                      .+|+.|+-......+.+++. ..+.+|||||...    +..+...+++   .++++|+|+|+++   +++++.+..|+..
T Consensus       186 ~~~~ftTl~p~~g~v~~~~~-~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~e  264 (342)
T 1lnz_A          186 ADYHFTTLVPNLGMVETDDG-RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQE  264 (342)
T ss_dssp             SSTTSSCCCCCEEEEECSSS-CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHH
T ss_pred             ccCCccccCceEEEEEeCCC-ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHH
Confidence            44554444333334555541 2466799999643    3335555544   5999999999998   7889999999998


Q ss_pred             HHhhcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         79 ILRVKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        79 i~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +..+.. ..++|+++|+||+|+...+    +....+++.++  ++++++||+++.|++++++++.+.+.+..
T Consensus       265 L~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~~~  332 (342)
T 1lnz_A          265 LSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLENTP  332 (342)
T ss_dssp             HHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTSCC
T ss_pred             HHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhhCc
Confidence            887642 2578999999999986422    34566777776  78999999999999999999999886543

>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=99.65  E-value=8.2e-16  Score=112.25  Aligned_cols=125  Identities=16%  Similarity=0.154  Sum_probs=86.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCccc--------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHH-HHHH
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE--------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFH-RQIL   80 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~--------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~-~~i~   80 (159)
                      ..++|+.......+..++  ..+.||||||..+        +......+++++|++++|+|++++.+..  ..|+ ..+.
T Consensus        37 ~~~~tTr~~i~~i~~~~~--~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~--~~~i~~~l~  112 (301)
T 1wf3_A           37 PRPQTTRKRLRGILTEGR--RQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPE--DELVARALK  112 (301)
T ss_dssp             SSSCCCCSCEEEEEEETT--EEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHH--HHHHHHHHG
T ss_pred             CCCCceeEEEEEEEEeCC--cEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChH--HHHHHHHHH
Confidence            445566555544444444  4566799999876        4456677889999999999999875443  3444 3444


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-C-CcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-R-IPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~-~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +..  .+.|+++|+||+|+.....    .....++.+ + .+++++||++|.|++++++.+.+.+.
T Consensus       113 ~~~--~~~p~ilV~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          113 PLV--GKVPILLVGNKLDAAKYPE----EAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMP  172 (301)
T ss_dssp             GGT--TTSCEEEEEECGGGCSSHH----HHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTCC
T ss_pred             hhc--CCCCEEEEEECcccCCchH----HHHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHHHHhcc
Confidence            432  4789999999999865322    022333333 3 46899999999999999999987653

>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=99.65  E-value=3e-15  Score=113.47  Aligned_cols=109  Identities=19%  Similarity=0.249  Sum_probs=76.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC----hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC-
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD----RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ-  104 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~-  104 (159)
                      ..+.||||||+++|...+...+..+|++|+|+|+++    +.+.+++..|    .. .  ...|+++++||+|+.+... 
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~-l--~~~~iivv~NK~Dl~~~~~~  153 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMAL----EI-L--GIDKIIIVQNKIDLVDEKQA  153 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHH----HH-T--TCCCEEEEEECTTSSCTTTT
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHH----HH-c--CCCeEEEEEEccCCCCHHHH
Confidence            678889999999988777677778899999999995    4555554422    12 1  2348999999999976443 


Q ss_pred             -CCHHHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        105 -VSSMDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       105 -~~~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                       ...++..++++..   +++++++||++|.|++++++++...+..
T Consensus       154 ~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          154 EENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             TTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence             2345566666553   5789999999999999999999986653

>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=99.64  E-value=4e-16  Score=119.77  Aligned_cols=129  Identities=23%  Similarity=0.281  Sum_probs=85.6

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHH--------HhhcCCEEEEEEECCChhhHHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQ--------YMRSGEGFLLVFSVTDRNSFEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~--------~~~~~~~ii~v~d~~~~~s~~~~~~~~~   77 (159)
                      .++.++++|+.+.....+.++|.++  .+|||+|...+...++.        +++.+|++++|+|++++.+... ..|+.
T Consensus       250 a~v~~~~gtT~d~~~~~i~~~g~~v--~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~-~~i~~  326 (462)
T 3geh_A          250 AIVTDLPGTTRDVVESQLVVGGIPV--QVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGD-QEIYE  326 (462)
T ss_dssp             SCCSCCTTCCHHHHHHEEEETTEEE--EECC--------------------CCCCSCSEEEEEEETTTCSCHHH-HHHHH
T ss_pred             ccccCCCCeeEEEEEEEEEECCEEE--EEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHH-HHHHH
Confidence            3466677777676666777888775  55999998765544333        4688999999999999776654 34444


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+      ...|+++|+||+|+.....+.  ....++  .+.+++++||++|.|++++++++.+.+....
T Consensus       327 ~l------~~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          327 QV------KHRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             HH------TTSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHHHHHHHHHHTTSS
T ss_pred             hc------cCCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            44      336999999999997654433  111111  3568999999999999999999999886554

>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=99.63  E-value=1.1e-15  Score=116.78  Aligned_cols=134  Identities=19%  Similarity=0.140  Sum_probs=88.0

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH------------HHHHhhcCCEEEEEEECCChhhHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM------------REQYMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~------------~~~~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      ++.++++|+.+.....+.++|..+  .+|||+|..++...            ...+++.+|++++++|+++..+..+. .
T Consensus       207 ~v~~~~gtT~d~~~~~i~~~g~~~--~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad~vllv~d~~~~~~~~~~-~  283 (439)
T 1mky_A          207 LVSPIPGTTRDPVDDEVFIDGRKY--VFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQ-R  283 (439)
T ss_dssp             EECCCC------CCEEEEETTEEE--EESSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHHH-H
T ss_pred             ccCCCCCCcCCceEEEEEECCEEE--EEEECCCCccccccchhhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHH-H
Confidence            356677777766677788898865  55999998543321            13467889999999999987666542 2


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH-HHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ-NVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +...+..    .++|+++|+||+|+.+.+..+.++.. .+++.    .+++++++||++|.|++++|+.+.+.+....
T Consensus       284 i~~~l~~----~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~~  357 (439)
T 1mky_A          284 MAGLMER----RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASYT  357 (439)
T ss_dssp             HHHHHHH----TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHH----cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHhhc
Confidence            2222222    56899999999999765544443332 23333    2578999999999999999999998776544

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.61  E-value=7.9e-16  Score=117.56  Aligned_cols=126  Identities=14%  Similarity=0.166  Sum_probs=78.6

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcc--------cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE--------EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~--------~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      +.++++++.+.....+.+++..  +++|||||++        ++...+..+++++|++|+|+|++++.+..+  .|+..+
T Consensus        31 v~~~~g~T~d~~~~~~~~~~~~--~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d--~~~~~~  106 (436)
T 2hjg_A           31 VEDTPGVTRDRIYSSAEWLNYD--FNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAAD--EEVAKI  106 (436)
T ss_dssp             ----------CEEEECTTCSSC--CEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHH--HHHHHH
T ss_pred             ecCCCCCccceEEEEEEECCce--EEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHH--HHHHHH
Confidence            3445555555555555556655  5569999986        566778888999999999999998766543  333343


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+   ..++|+++|+||+|+.+...    +..++. .+|+ +++++||++|.|+.++++++.+.+.+
T Consensus       107 l~---~~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          107 LY---RTKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             HT---TCCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHHHHHHHHHTGGG
T ss_pred             HH---HcCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHHHHHHHHHhcCc
Confidence            33   25789999999999864321    111222 4565 68999999999999999999988754

>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=99.60  E-value=9.6e-15  Score=110.77  Aligned_cols=109  Identities=16%  Similarity=0.219  Sum_probs=80.6

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC----hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC-
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD----RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ-  104 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~----~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~-  104 (159)
                      ..+.||||||+++|.......+..+|++|+|+|+++    +.+.+++..|    ...   ...|+++++||+|+.+... 
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~----~~~---~~~~iivviNK~Dl~~~~~~  155 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMAL----QII---GQKNIIIAQNKIELVDKEKA  155 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHH----HHH---TCCCEEEEEECGGGSCHHHH
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHH----HHc---CCCcEEEEEECccCCCHHHH
Confidence            678889999999998777777888999999999995    4555554422    221   2358999999999875332 


Q ss_pred             -CCHHHHHHHHHH---cCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        105 -VSSMDAQNVARQ---LRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       105 -~~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                       ...++...+++.   .+++++++||++|.|++++++++...+..
T Consensus       156 ~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~  200 (410)
T 1kk1_A          156 LENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIPT  200 (410)
T ss_dssp             HHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence             112334445443   35789999999999999999999886653

>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=99.60  E-value=1e-15  Score=104.99  Aligned_cols=109  Identities=7%  Similarity=0.018  Sum_probs=71.1

Q ss_pred             eCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHH---HHHhhc-CCCCCcEEEEEeCC-CCCCcCCCCHHHH
Q psy11289         36 DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR---QILRVK-DRDEFPMLMVGNKA-DLDHQRQVSSMDA  110 (159)
Q Consensus        36 D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~---~i~~~~-~~~~~p~ivv~nK~-D~~~~~~~~~~~~  110 (159)
                      +.+|+++.+++|+.|++++|++|||+|.+|.+.++ +..-+.   .++... ...++|++|++||. |++  ..++..+.
T Consensus       108 ~~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp--~Ams~~EI  184 (227)
T 3l82_B          108 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYL  184 (227)
T ss_dssp             ---------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS--CBCCHHHH
T ss_pred             ccCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc--CCCCHHHH
Confidence            45689999999999999999999999999986544 333332   233322 13578999999995 764  45566554


Q ss_pred             HHHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        111 QNVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       111 ~~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+...-    ..+.+..|||.+|+|+.+.++|+++.+..++
T Consensus       185 ~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          185 AHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESKR  225 (227)
T ss_dssp             HHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC-
T ss_pred             HHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhhc
Confidence            433211    1245899999999999999999998775443

>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=99.59  E-value=1.5e-14  Score=111.67  Aligned_cols=113  Identities=15%  Similarity=0.209  Sum_probs=84.9

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      +..++.  .+.+|||||+++|...+...+..+|++|+|+|+++   +.+.+.+.    .+ ..   .++|.++++||+|+
T Consensus        68 ~~~~~~--~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~----~~-~~---~~ip~IvviNK~Dl  137 (482)
T 1wb1_A           68 FKLENY--RITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHML----IL-DH---FNIPIIVVITKSDN  137 (482)
T ss_dssp             EEETTE--EEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHH----HH-HH---TTCCBCEEEECTTS
T ss_pred             EEECCE--EEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHH----HH-HH---cCCCEEEEEECCCc
Confidence            344554  45669999999998888889999999999999988   55555543    22 22   35788999999998


Q ss_pred             CCcCCC--CHHHHHHHHHHc----CCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        100 DHQRQV--SSMDAQNVARQL----RIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       100 ~~~~~~--~~~~~~~~~~~~----~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+....  ..++...+++..    +++++++||++|.|++++++++.+.+..
T Consensus       138 ~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~~  189 (482)
T 1wb1_A          138 AGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  189 (482)
T ss_dssp             SCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhcC
Confidence            753211  123444555555    5789999999999999999999998753

>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=99.58  E-value=3.3e-16  Score=117.01  Aligned_cols=131  Identities=16%  Similarity=0.231  Sum_probs=73.6

Q ss_pred             ccccceE-EEEEEECCeeEEEEEEeCCCc-------ccchHHHH-------HHhhcCCEE-----------EEEEECCC-
Q psy11289         13 PTIEDSY-TKQCVIDDIPARLDILDTAGQ-------EEFSAMRE-------QYMRSGEGF-----------LLVFSVTD-   65 (159)
Q Consensus        13 pt~~~~~-~~~~~~~~~~~~~~l~D~~g~-------~~~~~~~~-------~~~~~~~~i-----------i~v~d~~~-   65 (159)
                      ||++..+ ...+..++..+.+.+|||+|+       +++..++.       .|+++++++           +++|++++ 
T Consensus        77 ~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~  156 (361)
T 2qag_A           77 RTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF  156 (361)
T ss_dssp             -CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS
T ss_pred             CceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC
Confidence            5655333 444555677788999999999       77766666       777665544           35666654 


Q ss_pred             hhhHHHHH-HHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH--HHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         66 RNSFEEIY-KFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS--MDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        66 ~~s~~~~~-~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ..++..+. .|+..+    . .++|+|+|+||+|+...+.+..  +++..+++.++++++++||++|.| ++.|.++...
T Consensus       157 ~~~l~~~d~~~~~~l----~-~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~  230 (361)
T 2qag_A          157 GHGLKPLDVAFMKAI----H-NKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRL  230 (361)
T ss_dssp             SSSCCHHHHHHHHHT----C-S-SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHH
T ss_pred             CCCcchhHHHHHHHh----c-cCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHH
Confidence            44555544 343332    2 5789999999999976554433  456667777889999999999999 9999999998


Q ss_pred             HHhcccc
Q psy11289        143 VLLHTKQ  149 (159)
Q Consensus       143 ~~~~~~~  149 (159)
                      +.+..+.
T Consensus       231 i~~~ip~  237 (361)
T 2qag_A          231 LKASIPF  237 (361)
T ss_dssp             HHHTCSC
T ss_pred             HHhcCCC
Confidence            8776543

>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=99.57  E-value=9.2e-14  Score=103.80  Aligned_cols=135  Identities=16%  Similarity=0.109  Sum_probs=88.7

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCccc---------chHHHHHHhhcCCEEEEEEECCChh--hHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEE---------FSAMREQYMRSGEGFLLVFSVTDRN--SFEEIYKFHR   77 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~---------~~~~~~~~~~~~~~ii~v~d~~~~~--s~~~~~~~~~   77 (159)
                      .+++.++-+.....+.++|..  +.+|||+|..+         |.+.++ .+..+|++++|+|++++.  +...+..|..
T Consensus       207 ~~~~~~T~d~~~~~i~~~g~~--v~l~DT~G~i~~lp~~lve~f~~tl~-~~~~aD~il~VvD~s~~~~~~~~~~~~~~~  283 (364)
T 2qtf_A          207 DTKLFTTMSPKRYAIPINNRK--IMLVDTVGFIRGIPPQIVDAFFVTLS-EAKYSDALILVIDSTFSENLLIETLQSSFE  283 (364)
T ss_dssp             -------CCSCEEEEEETTEE--EEEEECCCBCSSCCGGGHHHHHHHHH-GGGGSSEEEEEEETTSCHHHHHHHHHHHHH
T ss_pred             cCCcccccCCEEEEEEECCEE--EEEEeCCCchhcCCHHHHHHHHHHHH-HHHhCCEEEEEEECCCCcchHHHHHHHHHH
Confidence            344445545556778888865  46699999722         333332 468899999999999887  5666656655


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCCcCCCC-HHHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDHQRQVS-SMDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+... ...+.|+++|+||+|+....... .+.+..++..+   +.+++++||++|.|++++++.+.+.+....
T Consensus       284 ~L~~l-~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~~~  356 (364)
T 2qtf_A          284 ILREI-GVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLATQLS  356 (364)
T ss_dssp             HHHHH-TCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             HHHHh-CcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHHHHHHHHHhcccC
Confidence            44443 33578999999999986432100 11233344555   246899999999999999999998776544

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.56  E-value=1.8e-14  Score=107.83  Aligned_cols=109  Identities=6%  Similarity=-0.034  Sum_probs=80.0

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEe-CCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGN-KADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~n-K~D~~~~~~~~~  107 (159)
                      .++.+|||||+++|.......++.+|++|+|+| ++ ..+....+|+..+..    .++|. ++++| |+|+ +.+.+..
T Consensus        60 ~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~-g~~~qt~e~~~~~~~----~~i~~~ivvvNNK~Dl-~~~~~~~  132 (370)
T 2elf_A           60 RNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQ-GLDAHTGECIIALDL----LGFKHGIIALTRSDST-HMHAIDE  132 (370)
T ss_dssp             SEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TT-CCCHHHHHHHHHHHH----TTCCEEEEEECCGGGS-CHHHHHH
T ss_pred             eEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CC-CCcHHHHHHHHHHHH----cCCCeEEEEEEeccCC-CHHHHHH
Confidence            347779999999998878888899999999999 43 344455555555443    35676 88888 9998 4332221


Q ss_pred             --HHHHHHHHHcC---CcEEE--eCCCC---CCCHHHHHHHHHHHHHh
Q psy11289        108 --MDAQNVARQLR---IPYIE--CSAKV---RINVDQAFHELVRIVLL  145 (159)
Q Consensus       108 --~~~~~~~~~~~---~~~~~--~sa~~---~~~i~~~~~~l~~~~~~  145 (159)
                        ++...+++..+   +++++  +||++   +.|++++++.+.+.+..
T Consensus       133 ~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          133 LKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             HHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhccc
Confidence              34445554443   68999  99999   99999999999987654

>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=99.56  E-value=4.3e-14  Score=109.24  Aligned_cols=106  Identities=14%  Similarity=0.069  Sum_probs=70.6

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH-----HHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE-----IYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~-----~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      .....+.||||||+++|...+..+++.+|++|+|+|++++.++..     ...+...+....  ...|+++|+||+|+.+
T Consensus       108 ~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iIvviNK~Dl~~  185 (483)
T 3p26_A          108 THRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVD  185 (483)
T ss_dssp             CSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGGT
T ss_pred             cCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEEEEEECcCccc
Confidence            334567779999999999999999999999999999999754322     112222222222  2347999999999976


Q ss_pred             cCCCCHHHH----HHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289        102 QRQVSSMDA----QNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus       102 ~~~~~~~~~----~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      .+....++.    ..+.+.++     ++++++||++|.|+.+
T Consensus       186 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          186 WSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             chHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            333323333    33333443     5799999999999875

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.56  E-value=5e-14  Score=109.76  Aligned_cols=74  Identities=20%  Similarity=0.237  Sum_probs=57.8

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+..++  +.++||||||+.+|...+..+++.+|++|+|+|+++..+.....-| ..+..    .++|+++++||+|+.
T Consensus        75 ~~~~~~~--~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~~~----~~iPiivviNK~Dl~  147 (528)
T 3tr5_A           75 MQFPYKD--YLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVCRL----RHTPIMTFINKMDRD  147 (528)
T ss_dssp             EEEEETT--EEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHHHT----TTCCEEEEEECTTSC
T ss_pred             EEEEeCC--EEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHH----cCCCEEEEEeCCCCc
Confidence            3344455  4566799999999999999999999999999999997777665544 33322    468999999999985


Q ss_pred             C
Q psy11289        101 H  101 (159)
Q Consensus       101 ~  101 (159)
                      .
T Consensus       148 ~  148 (528)
T 3tr5_A          148 T  148 (528)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.55  E-value=8.6e-15  Score=110.87  Aligned_cols=115  Identities=15%  Similarity=0.208  Sum_probs=82.0

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCc
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQ  102 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~  102 (159)
                      .++.....+.||||||+++|...+..+++.+|++|+|+|+++.... ...+|+..+..    .++| +++++||+|+.+.
T Consensus        69 ~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~-qt~~~l~~~~~----~~ip~iivviNK~Dl~~~  143 (405)
T 2c78_A           69 EYETAKRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMP-QTREHILLARQ----VGVPYIVVFMNKVDMVDD  143 (405)
T ss_dssp             EEECSSCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCH-HHHHHHHHHHH----TTCCCEEEEEECGGGCCC
T ss_pred             EeccCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcH-HHHHHHHHHHH----cCCCEEEEEEECccccCc
Confidence            3333344567799999999988888899999999999999886543 33455554443    3577 8899999998742


Q ss_pred             CC-C--CHHHHHHHHHHcC-----CcEEEeCCCCCCC------------------HHHHHHHHHHHH
Q psy11289        103 RQ-V--SSMDAQNVARQLR-----IPYIECSAKVRIN------------------VDQAFHELVRIV  143 (159)
Q Consensus       103 ~~-~--~~~~~~~~~~~~~-----~~~~~~sa~~~~~------------------i~~~~~~l~~~~  143 (159)
                      .. .  ..++...+++.++     ++++++||++|.|                  +.++++.+...+
T Consensus       144 ~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~l  210 (405)
T 2c78_A          144 PELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYI  210 (405)
T ss_dssp             HHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhc
Confidence            11 1  1234556666665     6799999999987                  666666666544

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.55  E-value=4e-14  Score=108.20  Aligned_cols=112  Identities=15%  Similarity=0.172  Sum_probs=75.6

Q ss_pred             EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhh---HH---HHHHHHHHHHhhcCCCCCc-EEE
Q psy11289         20 TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS---FE---EIYKFHRQILRVKDRDEFP-MLM   92 (159)
Q Consensus        20 ~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s---~~---~~~~~~~~i~~~~~~~~~p-~iv   92 (159)
                      ...+..++.  .+.||||||+++|...+...++.+|++|+|+|+++...   |.   ...+.+..+..    .++| +++
T Consensus        87 ~~~~~~~~~--~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~----~~v~~iIv  160 (439)
T 3j2k_7           87 RAYFETEKK--HFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT----AGVKHLIV  160 (439)
T ss_pred             EEEEecCCe--EEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH----cCCCeEEE
Confidence            334444555  56669999999999988899999999999999998532   11   11111122211    3566 999


Q ss_pred             EEeCCCCCCcC------CCCHHHHHHHHHHcC------CcEEEeCCCCCCCHHHHHH
Q psy11289         93 VGNKADLDHQR------QVSSMDAQNVARQLR------IPYIECSAKVRINVDQAFH  137 (159)
Q Consensus        93 v~nK~D~~~~~------~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~~~~  137 (159)
                      ++||+|+....      ....++...+++.+|      ++++++||++|.|+.++.+
T Consensus       161 viNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          161 LINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             EeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            99999985321      011233445555555      4699999999999999765

>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=99.55  E-value=2e-15  Score=115.36  Aligned_cols=109  Identities=15%  Similarity=0.142  Sum_probs=78.2

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc---CCCC-CcEEEEEeCCCCCCcC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK---DRDE-FPMLMVGNKADLDHQR  103 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~---~~~~-~p~ivv~nK~D~~~~~  103 (159)
                      ...++.||||||+++|...+..+++.+|++|+|+|+++ .+|+.+..|..+..+..   ...+ .|+++++||+|+.+..
T Consensus        82 ~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~  160 (435)
T 1jny_A           82 KKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPP  160 (435)
T ss_dssp             SSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSST
T ss_pred             CCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcc
Confidence            34557779999999999889999999999999999998 67775443322222211   1123 3689999999986521


Q ss_pred             ------CCCHHHHHHHHHHcC-----CcEEEeCCCCCCCHHHHHH
Q psy11289        104 ------QVSSMDAQNVARQLR-----IPYIECSAKVRINVDQAFH  137 (159)
Q Consensus       104 ------~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~~  137 (159)
                            ....++...+++.++     ++++++||++|.|+.++++
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                  111345666777766     6799999999999986554

>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=99.55  E-value=3.8e-14  Score=111.72  Aligned_cols=107  Identities=18%  Similarity=0.221  Sum_probs=78.9

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC-
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS-  106 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~-  106 (159)
                      .++||||||+++|..++..+++.+|++|+|+|+++   +.+++.+..    +..    .++|+++++||+|+....... 
T Consensus        71 ~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~----~~vPiIVViNKiDl~~~~~~~~  142 (594)
T 1g7s_A           71 GLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNI----LRM----YRTPFVVAANKIDRIHGWRVHE  142 (594)
T ss_dssp             EEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH----TTCCEEEEEECGGGSTTCCCCT
T ss_pred             CEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHH----HHH----cCCeEEEEeccccccccccccc
Confidence            47889999999998888888899999999999999   777765532    222    568999999999986422110 


Q ss_pred             ------------HH----------HHHHHHHHcC---------------CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        107 ------------SM----------DAQNVARQLR---------------IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       107 ------------~~----------~~~~~~~~~~---------------~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                                  ..          +......+.+               ++++++||++|.|++++++++...+..
T Consensus       143 ~~~~~e~sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          143 GRPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             TCCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCchHHHHHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence                        00          1111112222               379999999999999999999987753

>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=99.53  E-value=2.1e-14  Score=108.45  Aligned_cols=113  Identities=13%  Similarity=0.132  Sum_probs=80.8

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcCC-
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQRQ-  104 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~~-  104 (159)
                      .....+.||||||+++|...+..+++.+|++|+|+|+++....+... ++..+..    .++| +++++||+|+.+... 
T Consensus        63 ~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e-~l~~~~~----~~vp~iivviNK~Dl~~~~~~  137 (397)
T 1d2e_A           63 TAARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTRE-HLLLARQ----IGVEHVVVYVNKADAVQDSEM  137 (397)
T ss_dssp             CSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHH-HHHHHHH----TTCCCEEEEEECGGGCSCHHH
T ss_pred             cCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHH-HHHHHHH----cCCCeEEEEEECcccCCCHHH
Confidence            33445677999999999888888899999999999999854333222 2233322    3578 789999999874211 


Q ss_pred             --CCHHHHHHHHHHcC-----CcEEEeCCCCCCC----------HHHHHHHHHHHHH
Q psy11289        105 --VSSMDAQNVARQLR-----IPYIECSAKVRIN----------VDQAFHELVRIVL  144 (159)
Q Consensus       105 --~~~~~~~~~~~~~~-----~~~~~~sa~~~~~----------i~~~~~~l~~~~~  144 (159)
                        ...++..++++.++     ++++++||++|.|          +.++++.+.+.+.
T Consensus       138 ~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          138 VELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             HHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence              11235566777766     5899999999764          8888888877654

>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=99.53  E-value=3.4e-14  Score=108.48  Aligned_cols=104  Identities=14%  Similarity=0.100  Sum_probs=74.9

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC--C-
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ--V-  105 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~--~-  105 (159)
                      ..++.||||||+++|...+..+++.+|++|+|+|+++.... ....++..+...   .-.|+++|+||+|+.+...  + 
T Consensus       103 ~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~~~~~  178 (434)
T 1zun_B          103 KRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL---GIKHIVVAINKMDLNGFDERVFE  178 (434)
T ss_dssp             SEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT---TCCEEEEEEECTTTTTSCHHHHH
T ss_pred             CceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCeEEEEEEcCcCCcccHHHHH
Confidence            34577799999999988888899999999999999986432 223343333221   2236899999999865221  1 


Q ss_pred             -CHHHHHHHHHHcC-----CcEEEeCCCCCCCHHHHH
Q psy11289        106 -SSMDAQNVARQLR-----IPYIECSAKVRINVDQAF  136 (159)
Q Consensus       106 -~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~~  136 (159)
                       ..++...+++.++     ++++++||++|.|+.+++
T Consensus       179 ~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~  215 (434)
T 1zun_B          179 SIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKS  215 (434)
T ss_dssp             HHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCC
T ss_pred             HHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccc
Confidence             1234556677777     679999999999998853

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.52  E-value=1e-14  Score=105.03  Aligned_cols=135  Identities=12%  Similarity=0.149  Sum_probs=71.6

Q ss_pred             cccccccc-------cccccceE-EEEEEECCeeEEEEEEeCCCc-------ccchHHH-------HHHhhc--------
Q psy11289          4 ESYFVTDY-------DPTIEDSY-TKQCVIDDIPARLDILDTAGQ-------EEFSAMR-------EQYMRS--------   53 (159)
Q Consensus         4 ~~~f~~~~-------~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~-------~~~~~~~-------~~~~~~--------   53 (159)
                      .+.|..++       .||++..+ ...+..+|..+.+.+|||||.       +.+..+.       ..|++.        
T Consensus        31 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~~l~~~~~~~r~~  110 (274)
T 3t5d_A           31 TDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQ  110 (274)
T ss_dssp             SCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHHHHHHHHSSCCCS
T ss_pred             CCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHHHHHHHHHHHHHHHHhhccccccc
Confidence            34555555       67777443 555556777788999999998       2344444       555554        


Q ss_pred             -----CCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcCCcEEEeCC
Q psy11289         54 -----GEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus        54 -----~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~sa  126 (159)
                           +|+++++++.+...-...-..++..+..     ++|+++|+||+|+.....+.  .+...+.....+++++++||
T Consensus       111 ~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~-----~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa  185 (274)
T 3t5d_A          111 MPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-----KVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPE  185 (274)
T ss_dssp             CCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT-----TSCEEEEESSGGGSCHHHHHHHHHHHHHHHHHTTCCCCCC--
T ss_pred             ccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc-----cCCEEEEEeccCCCCHHHHHHHHHHHHHHHHHcCCeEEcCCC
Confidence                 7899999977652211111233333322     68999999999986432221  12234445567899999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy11289        127 KVRINVDQAFHELVRIV  143 (159)
Q Consensus       127 ~~~~~i~~~~~~l~~~~  143 (159)
                      .++.|+.++++++.+.+
T Consensus       186 ~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          186 TDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             ---------CHHHHHTC
T ss_pred             CCChhHHHHHHHHhcCC
Confidence            99999999999988754

>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=99.52  E-value=3.4e-14  Score=101.87  Aligned_cols=108  Identities=7%  Similarity=0.015  Sum_probs=75.2

Q ss_pred             eCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHH---HHHhhc-CCCCCcEEEEEeC-CCCCCcCCCCHHHH
Q psy11289         36 DTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHR---QILRVK-DRDEFPMLMVGNK-ADLDHQRQVSSMDA  110 (159)
Q Consensus        36 D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~---~i~~~~-~~~~~p~ivv~nK-~D~~~~~~~~~~~~  110 (159)
                      |.+||++.+++|+.|++++|++|||+|.+|.+.++ ...-+.   .+.... ...+.|++|++|| .|++  ..++..+.
T Consensus       193 ~~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp--~Ams~~EI  269 (312)
T 3l2o_B          193 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYL  269 (312)
T ss_dssp             ----CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS--CBCCHHHH
T ss_pred             CCCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc--CCCCHHHH
Confidence            35799999999999999999999999999987654 332222   333222 1367899999996 6875  45555544


Q ss_pred             HHHHHH----cCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        111 QNVARQ----LRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       111 ~~~~~~----~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .+...-    ..+.+..|||.+|+|+.+.++|+++.+..+
T Consensus       270 ~e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          270 AHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HHHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            332211    124489999999999999999999887543

>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=99.50  E-value=4.4e-14  Score=103.09  Aligned_cols=126  Identities=17%  Similarity=0.119  Sum_probs=82.8

Q ss_pred             ccccccceEEEEEEECCeeEEEEEEeCCCcc-cchH-H-------HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         11 YDPTIEDSYTKQCVIDDIPARLDILDTAGQE-EFSA-M-------REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        11 ~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~-~~~~-~-------~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      .++|+.......+..++.  .+.+|||||+. +... +       ...+++.+|++++|+|+++   +.....|+.....
T Consensus        39 ~~~tTr~~~~gi~~~~~~--~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~---~~~~~~~i~~~l~  113 (301)
T 1ega_A           39 KAQTTRHRIVGIHTEGAY--QAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTR---WTPDDEMVLNKLR  113 (301)
T ss_dssp             CSSCCSSCEEEEEEETTE--EEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTC---CCHHHHHHHHHHH
T ss_pred             CCCcceeeEEEEEEECCe--eEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCC---CCHHHHHHHHHHH
Confidence            344555444444455554  45669999997 3321 1       2344678999999999977   2233334433332


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                         ..+.|+++++||+|+...+....+....+++.+++ .++++||++|.|++++++.+...+.
T Consensus       114 ---~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l~  174 (301)
T 1ega_A          114 ---EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLP  174 (301)
T ss_dssp             ---SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCC
T ss_pred             ---hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhCC
Confidence               14689999999999865222112344555556676 5999999999999999999987653

>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=99.50  E-value=2.1e-13  Score=97.26  Aligned_cols=135  Identities=10%  Similarity=0.050  Sum_probs=85.4

Q ss_pred             cccccccc--ccceEEEEEEECCeeEEEEEEeCCCcccch-----------HHHHHHhhcCCEEEEEEECCChhhH-HHH
Q psy11289          7 FVTDYDPT--IEDSYTKQCVIDDIPARLDILDTAGQEEFS-----------AMREQYMRSGEGFLLVFSVTDRNSF-EEI   72 (159)
Q Consensus         7 f~~~~~pt--~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-----------~~~~~~~~~~~~ii~v~d~~~~~s~-~~~   72 (159)
                      |...+.|+  +.......+..++..  +.||||||+..+.           .....+++++|++++|+|+++.... ..+
T Consensus        48 ~~~~~~~~~~t~~~~~~~~~~~~~~--i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~  125 (260)
T 2xtp_A           48 FESKLGSQTLTKTCSKSQGSWGNRE--IVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQA  125 (260)
T ss_dssp             SCCCTTSCCCCCSCEEEEEEETTEE--EEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHH
T ss_pred             cccCCCCCceeeeeEEEEEEeCCCE--EEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHH
Confidence            55555554  334455666777766  4559999987642           1223467889999999999863322 223


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEe-CCCCCCcCCCCH-------HHHHHHHHHcCCc---E--EEeCCCCCCCHHHHHHHH
Q psy11289         73 YKFHRQILRVKDRDEFPMLMVGN-KADLDHQRQVSS-------MDAQNVARQLRIP---Y--IECSAKVRINVDQAFHEL  139 (159)
Q Consensus        73 ~~~~~~i~~~~~~~~~p~ivv~n-K~D~~~~~~~~~-------~~~~~~~~~~~~~---~--~~~sa~~~~~i~~~~~~l  139 (159)
                      ..|+..+....  ...|+++++| |+|+.+. .+..       .+...++...+..   +  +++||++|.|++++|+++
T Consensus       126 ~~~l~~~~~~~--~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i  202 (260)
T 2xtp_A          126 AQRVKEIFGED--AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCI  202 (260)
T ss_dssp             HHHHHHHHCGG--GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCch--hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHH
Confidence            34443332211  1456666666 9998743 2211       2344466666543   2  789999999999999999


Q ss_pred             HHHHHhc
Q psy11289        140 VRIVLLH  146 (159)
Q Consensus       140 ~~~~~~~  146 (159)
                      ...+...
T Consensus       203 ~~~~~~~  209 (260)
T 2xtp_A          203 EDLLMEK  209 (260)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhC
Confidence            9988653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.49  E-value=5.5e-16  Score=120.62  Aligned_cols=133  Identities=15%  Similarity=0.155  Sum_probs=88.2

Q ss_pred             ccccccccccceE-EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC
Q psy11289          7 FVTDYDPTIEDSY-TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD   84 (159)
Q Consensus         7 f~~~~~pt~~~~~-~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~   84 (159)
                      +...+.|++...+ ...+.. ++..  +.||||||+++|..++..+++.+|++++|+|+++....+....| ..+..   
T Consensus        29 ~~~~~~~giT~~i~~~~v~~~~g~~--i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l-~~~~~---  102 (537)
T 3izy_P           29 VAAMEAGGITQHIGAFLVSLPSGEK--ITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESI-QHAKD---  102 (537)
T ss_dssp             HHHSSSCCBCCCTTSCCBCSSCSSC--CBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHH-HHHHT---
T ss_pred             cccccCCceeEEEeEEEEEeCCCCE--EEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHH-HHHHH---
Confidence            3344455554332 333333 3444  55699999999999888999999999999999986554443322 22222   


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCC-HHHHHHH---HHHc--CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVS-SMDAQNV---ARQL--RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~---~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                       .++|+++++||+|+.+..... ..+...+   +..+  .++++++||++|.|++++++++..++...
T Consensus       103 -~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~~~~  169 (537)
T 3izy_P          103 -AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIALAEML  169 (537)
T ss_dssp             -TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHHTTC
T ss_pred             -cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhhhcc
Confidence             568999999999986432211 1111111   1112  25799999999999999999999877543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.49  E-value=1.7e-14  Score=98.29  Aligned_cols=78  Identities=18%  Similarity=0.353  Sum_probs=63.8

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhc----CCEEEEEEECC-ChhhHHHHHHHHHHHHhhcC---CCCCcEEEEEeCCCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRS----GEGFLLVFSVT-DRNSFEEIYKFHRQILRVKD---RDEFPMLMVGNKADL   99 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~----~~~ii~v~d~~-~~~s~~~~~~~~~~i~~~~~---~~~~p~ivv~nK~D~   99 (159)
                      ..+.+.+|||||++.+...+..++++    +|++++|||++ +++++..+..|+..+.....   ..+.|+++|+||+|+
T Consensus        89 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl  168 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSEL  168 (193)
T ss_dssp             CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTS
T ss_pred             cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHh
Confidence            34556779999999988778888766    89999999999 89999999999888776532   257899999999999


Q ss_pred             CCcCCC
Q psy11289        100 DHQRQV  105 (159)
Q Consensus       100 ~~~~~~  105 (159)
                      .+...+
T Consensus       169 ~~~~~~  174 (193)
T 2ged_A          169 FTARPP  174 (193)
T ss_dssp             TTCCCH
T ss_pred             cCCCCH
Confidence            765543

>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=99.48  E-value=1.2e-12  Score=92.25  Aligned_cols=127  Identities=17%  Similarity=0.122  Sum_probs=82.0

Q ss_pred             ceEEEEEEECCeeEEEEEEeCCCcc-----------cchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC-
Q psy11289         17 DSYTKQCVIDDIPARLDILDTAGQE-----------EFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD-   84 (159)
Q Consensus        17 ~~~~~~~~~~~~~~~~~l~D~~g~~-----------~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-   84 (159)
                      ......+.+++..+  .||||||..           .+......+++++|++|+|+|+++.....  ..|+..+..... 
T Consensus        67 ~~~~~~~~~~~~~i--~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~--~~~l~~~~~~~~~  142 (239)
T 3lxx_A           67 KCEKRSSSWKETEL--VVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEE--HKATEKILKMFGE  142 (239)
T ss_dssp             SCEEEEEEETTEEE--EEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHH--HHHHHHHHHHHHH
T ss_pred             eEEEEEEEeCCceE--EEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHH--HHHHHHHHHHhhh
Confidence            44466677788765  559999953           33444455567889999999997644321  223333322111 


Q ss_pred             CCCCcEEEEEeCCCCCCcCCCC------HHHHHHHHHHcCCcEEEeCCCCC-----CCHHHHHHHHHHHHHhcc
Q psy11289         85 RDEFPMLMVGNKADLDHQRQVS------SMDAQNVARQLRIPYIECSAKVR-----INVDQAFHELVRIVLLHT  147 (159)
Q Consensus        85 ~~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~sa~~~-----~~i~~~~~~l~~~~~~~~  147 (159)
                      ....|+++|+||+|+.+...+.      .+....+++..+..++.++...+     .++.++|+.+...+.+..
T Consensus       143 ~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~~  216 (239)
T 3lxx_A          143 RARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRENK  216 (239)
T ss_dssp             HHGGGEEEEEECGGGC------------CHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             hccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHHcC
Confidence            1245999999999986554443      23567788888988888887754     689999998888776543

>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=99.47  E-value=1.3e-14  Score=111.76  Aligned_cols=110  Identities=17%  Similarity=0.189  Sum_probs=65.5

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADL   99 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~   99 (159)
                      ..++.  ++.||||||+++|...+...++.+|++|+|+|+++.   .+|+....|...+.... ..++| +++++||+|+
T Consensus       117 ~~~~~--~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~-~~~vp~iivviNK~Dl  193 (467)
T 1r5b_A          117 ETEHR--RFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLAR-TQGINHLVVVINKMDE  193 (467)
T ss_dssp             ECSSE--EEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHH-HTTCSSEEEEEECTTS
T ss_pred             ecCCe--EEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHH-HcCCCEEEEEEECccC
Confidence            33444  566799999999988888889999999999999985   33432222222222111 14567 9999999998


Q ss_pred             CCcC------CCCHHHHHHHHHHc-C------CcEEEeCCCCCCCHHHHH
Q psy11289        100 DHQR------QVSSMDAQNVARQL-R------IPYIECSAKVRINVDQAF  136 (159)
Q Consensus       100 ~~~~------~~~~~~~~~~~~~~-~------~~~~~~sa~~~~~i~~~~  136 (159)
                      ....      ....++...+++.+ |      ++++++||++|.|+.+++
T Consensus       194 ~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          194 PSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             TTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             CCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            5421      01123456666666 4      569999999999998765

>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=99.46  E-value=8.6e-14  Score=115.47  Aligned_cols=115  Identities=16%  Similarity=0.143  Sum_probs=82.5

Q ss_pred             ECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCCcC
Q psy11289         25 IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLDHQR  103 (159)
Q Consensus        25 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~~~  103 (159)
                      ++.....+.||||||+++|...+..+++.+|++|+|+|+++....+ ..+++..+..    .++| +|+++||+|+.+..
T Consensus       354 f~~~~~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~Q-TrEhL~ll~~----lgIP~IIVVINKiDLv~d~  428 (1289)
T 3avx_A          354 YDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLGRQ----VGVPYIIVFLNKCDMVDDE  428 (1289)
T ss_dssp             EECSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTT-HHHHHHHHHH----HTCSCEEEEEECCTTCCCH
T ss_pred             EcCCCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHH-HHHHHHHHHH----cCCCeEEEEEeecccccch
Confidence            3344456778999999999888888899999999999999864322 2334444333    3567 78999999987522


Q ss_pred             CC---CHHHHHHHHHHcC-----CcEEEeCCCCC--------CCHHHHHHHHHHHHH
Q psy11289        104 QV---SSMDAQNVARQLR-----IPYIECSAKVR--------INVDQAFHELVRIVL  144 (159)
Q Consensus       104 ~~---~~~~~~~~~~~~~-----~~~~~~sa~~~--------~~i~~~~~~l~~~~~  144 (159)
                      ..   ..++...+++.++     ++++++||++|        .|+.++++.+...+.
T Consensus       429 e~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          429 ELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             hhHHHHHHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            11   1245566777766     68999999999        458888888776553

>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=99.45  E-value=9.8e-13  Score=105.15  Aligned_cols=68  Identities=18%  Similarity=0.172  Sum_probs=53.6

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+.++||||||+.+|...+..+++.+|++++|+|+++.-.... ..++..+..    .++|+++++||+|+.
T Consensus        72 ~~~~~nliDTpG~~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~----~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           72 RGHRVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGT-ERAWTVAER----LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             TTEEEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH----TTCCEEEEEECGGGC
T ss_pred             CCEEEEEEeCCCccchHHHHHHHHhhcCcEEEEEcCCcccchhH-HHHHHHHHH----ccCCEEEEecCCchh
Confidence            35667889999999999889999999999999999987544332 244444433    468999999999986

>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=99.45  E-value=1.1e-13  Score=106.35  Aligned_cols=103  Identities=12%  Similarity=0.141  Sum_probs=72.5

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hHH---HHHHHHHHHHhhcCCCCCc-EEEEEeCCCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SFE---EIYKFHRQILRVKDRDEFP-MLMVGNKADLDH  101 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~~  101 (159)
                      ...+.||||||+++|...+..+++.+|++|+|+|+++..   +|+   ...+.+.....    .++| +++++||+|+.+
T Consensus        84 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~----~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           84 KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT----LGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH----TTCCEEEEEEECGGGGT
T ss_pred             CceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH----cCCCeEEEEEEcccccc
Confidence            345777999999999988889999999999999999753   331   22222222222    3455 899999999863


Q ss_pred             cCC----CCHHHHHHHHHHcC-----CcEEEeCCCCCCCHHHH
Q psy11289        102 QRQ----VSSMDAQNVARQLR-----IPYIECSAKVRINVDQA  135 (159)
Q Consensus       102 ~~~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  135 (159)
                      ...    ...++...+++.++     ++++++||++|.|+.++
T Consensus       160 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          160 WDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            111    11234556666666     68999999999998754

>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=99.45  E-value=1.9e-13  Score=105.01  Aligned_cols=124  Identities=13%  Similarity=0.121  Sum_probs=76.4

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCC--------cccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAG--------QEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g--------~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++++.+.....+..++.  .+++|||||        ++++...+..+++++|++|+|+|..+..+..  ..|+..+.+
T Consensus        53 ~~~g~t~~~~~~~~~~~~~--~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~--d~~l~~~l~  128 (456)
T 4dcu_A           53 DTPGVTRDRIYSSAEWLNY--DFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAA--DEEVAKILY  128 (456)
T ss_dssp             --------CEEEECTTCSS--CCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHH--HHHHHHHHT
T ss_pred             CCCCcceeEEEEEEEECCc--eEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChH--HHHHHHHHH
Confidence            3344444443333333444  456699999        7777788889999999999999987743322  233333333


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCC-cEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI-PYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .   .++|+++|+||+|+.+..    ....++. .+++ ..+++||++|.|+.++++.+...+..
T Consensus       129 ~---~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          129 R---TKKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             T---CCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHHHHHTTGGG
T ss_pred             H---cCCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccchHHHHHHHHhhccc
Confidence            2   578999999999975421    1111111 2343 47899999999999999999886643

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.43  E-value=6.7e-14  Score=110.78  Aligned_cols=106  Identities=14%  Similarity=0.116  Sum_probs=69.8

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS  106 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~  106 (159)
                      ..+.||||||+++|...+..+++.+|++|+|+|+++..   ++.....+...+.........|+|+|+||+|+.+.....
T Consensus       245 ~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~~iIVVvNKiDl~~~~~~~  324 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQR  324 (611)
T ss_dssp             CEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCCEEEEEEECTTTTTTCHHH
T ss_pred             ceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCCeEEEEEecccccchhHHH
Confidence            45677999999999988888899999999999998742   110011111111111111224599999999987532222


Q ss_pred             H----HHHHHHHHHcC-----CcEEEeCCCCCCCHHHH
Q psy11289        107 S----MDAQNVARQLR-----IPYIECSAKVRINVDQA  135 (159)
Q Consensus       107 ~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~~  135 (159)
                      .    ++...++..+|     ++++++||++|.|+.++
T Consensus       325 ~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          325 FEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2    23334444444     57999999999999876

>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=99.40  E-value=7.1e-15  Score=113.57  Aligned_cols=109  Identities=19%  Similarity=0.306  Sum_probs=76.9

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..++..  +.||||||++.|..++...++.+|++++|+|+++   +.+.+.+.    ....    .++|+++++||+|+.
T Consensus        47 ~~~~~~--i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~----~~~~----~~vPiIVviNKiDl~  116 (501)
T 1zo1_I           47 ETENGM--ITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQ----HAKA----AQVPVVVAVNKIDKP  116 (501)
T ss_dssp             CTTSSC--CCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHH----HHHH----TTCCEEEEEECSSSS
T ss_pred             EECCEE--EEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHH----HHHh----cCceEEEEEEecccc
Confidence            345554  5569999999998888888899999999999988   45554432    2222    468999999999986


Q ss_pred             Cc--CCCCHH--HHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        101 HQ--RQVSSM--DAQNVARQLR--IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       101 ~~--~~~~~~--~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      +.  ..+..+  +...++..++  ++++++||++|.|++++|+++...
T Consensus       117 ~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I          117 EADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             TTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             ccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence            42  111110  0001122233  689999999999999999998754

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.37  E-value=2.4e-13  Score=98.63  Aligned_cols=110  Identities=15%  Similarity=0.065  Sum_probs=74.1

Q ss_pred             EEEEEEeCCCcc-------------cchHHHHHHhhcCCEEE-EEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEe
Q psy11289         30 ARLDILDTAGQE-------------EFSAMREQYMRSGEGFL-LVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN   95 (159)
Q Consensus        30 ~~~~l~D~~g~~-------------~~~~~~~~~~~~~~~ii-~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~n   95 (159)
                      ..+.||||||..             .+..++..+++.++.++ +|+|+++..+......|+..+.    ..+.|+++|+|
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~----~~~~~~i~V~N  200 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD----PQGQRTIGVIT  200 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC----TTCSSEEEEEE
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhC----CCCCeEEEEEE
Confidence            456779999964             34567788888888777 7999987654444333444332    25689999999


Q ss_pred             CCCCCCcCCCCHHHHHHHHHH--cC-CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         96 KADLDHQRQVSSMDAQNVARQ--LR-IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        96 K~D~~~~~~~~~~~~~~~~~~--~~-~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      |+|+.+......+........  .+ .+++++||++|.|++++++++....
T Consensus       201 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          201 KLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             CGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             ccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            999976444223222110001  12 3578999999999999999988743

>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=99.36  E-value=8.9e-12  Score=97.19  Aligned_cols=67  Identities=25%  Similarity=0.369  Sum_probs=51.5

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.++||||||+.+|...+..+++.+|++|+|+|+++......     ..+.......++|+++++||+|+..
T Consensus        82 ~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-----~~~~~~~~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           82 CLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-----RKLMEVTRLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             EEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-----HHHHHHHTTTTCCEEEEEECTTSCC
T ss_pred             eEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-----HHHHHHHHHcCCCEEEEEcCcCCcc
Confidence            456779999999999888899999999999999988643221     2222333335789999999999854

>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=99.33  E-value=3.3e-11  Score=91.33  Aligned_cols=135  Identities=13%  Similarity=0.106  Sum_probs=90.7

Q ss_pred             cccccccceEEEEEEECCeeEEEEEEeCCCcccc----hHHHH---HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289         10 DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF----SAMRE---QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus        10 ~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~----~~~~~---~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +++.|+-......+..++ ...+.+||++|....    ..+..   ...+.++.++.++|++ ..++.++..|.+++..+
T Consensus       186 ~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls-~~~~~~ls~g~~el~~l  263 (416)
T 1udx_A          186 PYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA-DEPLKTLETLRKEVGAY  263 (416)
T ss_dssp             CCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHH
T ss_pred             CcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHH
Confidence            344443333233445554 234566999998432    11212   2245799999999998 66677777777776665


Q ss_pred             cC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         83 KD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        83 ~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .. ....|.++++||+|+...  ...+.....++..+++++.+||+++.|++++++++.+.+.+...
T Consensus       264 a~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          264 DPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             CHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             hHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHHHHHHHHHHHHhccc
Confidence            31 135799999999998653  12333444555567899999999999999999999999876553

>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=99.31  E-value=2.3e-11  Score=97.60  Aligned_cols=67  Identities=24%  Similarity=0.371  Sum_probs=55.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.++||||||+.+|...+..+++.+|++|+|+|+++..+......|.. +..    .++|+++++||+|+..
T Consensus        77 ~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~----~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           77 HRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK----YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             EEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH----TTCCEEEEEECTTSTT
T ss_pred             eEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHH-HHH----cCCCEEEEEECCCccc
Confidence            556779999999999999999999999999999999877776665543 333    4689999999999854

>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=99.30  E-value=4.3e-11  Score=96.20  Aligned_cols=70  Identities=26%  Similarity=0.340  Sum_probs=55.6

Q ss_pred             CeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         27 DIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        27 ~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +..+.++||||||+.+|...+..+++.+|++|+|+|+++.........| .....    .++|+++++||+|+..
T Consensus        79 ~~~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~-~~~~~----~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           79 YEPHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW-RQANK----YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             CCceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH-HHHHH----cCCCEEEEEeCCCccc
Confidence            3457888999999999998899999999999999999987655544434 23322    4689999999999853

>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=99.29  E-value=2.1e-11  Score=83.86  Aligned_cols=128  Identities=12%  Similarity=0.106  Sum_probs=76.1

Q ss_pred             cccccccccceE-EEEEEECCeeEEEEEEeCCCccc----------chHHHHHHh---hcCCEEEEEEECCChhhHHH--
Q psy11289          8 VTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEE----------FSAMREQYM---RSGEGFLLVFSVTDRNSFEE--   71 (159)
Q Consensus         8 ~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~----------~~~~~~~~~---~~~~~ii~v~d~~~~~s~~~--   71 (159)
                      ...+.|+.|... ...+.+++   .+.+||+||...          +......++   +.++++++++|++++.+...  
T Consensus        52 ~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~  128 (210)
T 1pui_A           52 LARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQ  128 (210)
T ss_dssp             -----------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH
T ss_pred             cccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhHHH
Confidence            344467777443 34444444   355699999842          333344444   47899999999998755432  


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC--CCHHHHHHHHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ--VSSMDAQNVARQLR--IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      +..|+.    .   .+.|+++++||+|+.....  ...+.+..++...+  +.++++||+++.|++++++.+.+.+.+
T Consensus       129 ~~~~~~----~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          129 MIEWAV----D---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             HHHHHH----H---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             HHHHHH----H---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            223321    1   4679999999999754221  11234445555554  468899999999999999999887643

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.28  E-value=2.7e-11  Score=90.63  Aligned_cols=97  Identities=20%  Similarity=0.192  Sum_probs=75.1

Q ss_pred             CcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHH----HH
Q psy11289         39 GQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQN----VA  114 (159)
Q Consensus        39 g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~----~~  114 (159)
                      ..++|.++++.+.+.++++++|+|++++.     ..|...+.++.  .++|+++|+||+|+.+.. ...+...+    ++
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~--~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~  126 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV--GNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSA  126 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS--SSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh--CCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHH
Confidence            45788999999999999999999999864     45666666654  478999999999996533 33333333    36


Q ss_pred             HHcCC---cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        115 RQLRI---PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       115 ~~~~~---~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +..|+   +++.+||++|.|++++++.+.+..
T Consensus       127 ~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          127 KQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            66787   699999999999999999987643

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.27  E-value=1.3e-11  Score=99.04  Aligned_cols=113  Identities=12%  Similarity=0.150  Sum_probs=80.1

Q ss_pred             EEEEEeCCCccc---chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         31 RLDILDTAGQEE---FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        31 ~~~l~D~~g~~~---~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      .+.||||||...   ....+..+++++|++|+|+|++++.+..+...|...+..    .+.|+++|+||+|+.....++.
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~----~~~~iiiVlNK~Dl~~~~~~~~  250 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG----RGLTVFFLVNAWDQVRESLIDP  250 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT----SCCCEEEEEECGGGGGGGCSST
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh----hCCCEEEEEECcccccccccCh
Confidence            467799999765   345667888999999999999998887776655433322    3678999999999865432221


Q ss_pred             H----------HHHH-----HHHHc--------CCcEEEeCCC--------------CCCCHHHHHHHHHHHHHhcc
Q psy11289        108 M----------DAQN-----VARQL--------RIPYIECSAK--------------VRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       108 ~----------~~~~-----~~~~~--------~~~~~~~sa~--------------~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +          ....     +....        +.+++++||+              +|.|++++++.+.+.+....
T Consensus       251 ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          251 DDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHHhH
Confidence            1          1111     11111        2469999999              99999999999998776543

>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=99.25  E-value=2.3e-12  Score=93.96  Aligned_cols=120  Identities=14%  Similarity=0.182  Sum_probs=68.2

Q ss_pred             EEECCeeEEEEEEeCCCc-------ccchHHHH-------HHhhcC-------------CEEEEEEECCChhhHHHHHHH
Q psy11289         23 CVIDDIPARLDILDTAGQ-------EEFSAMRE-------QYMRSG-------------EGFLLVFSVTDRNSFEEIYKF   75 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~-------~~~~~~~~-------~~~~~~-------------~~ii~v~d~~~~~s~~~~~~~   75 (159)
                      +..++....+.+||++|.       +++..+..       .+++..             ++++++.+++. .+++.+.  
T Consensus        69 ~q~~~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~-~~Ld~~~--  145 (301)
T 2qnr_A           69 IEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFG-HGLKPLD--  145 (301)
T ss_dssp             EC---CCEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSS-SSCCHHH--
T ss_pred             ecCCCcccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcc-cCCCHHH--
Confidence            333566678899999998       66666555       555443             33555554432 1233332  


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCcCCC--CHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQRQV--SSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ...+....  ...|+++|+||.|+...+.+  ..+++.++++.++++++++||++| |++++|.++.+.+.+..+
T Consensus       146 ~~~l~~l~--~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          146 VAFMKAIH--NKVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHHHHHHT--TTSCEEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHHHHHHH--hcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            12222322  45799999999998754433  245677888899999999999999 999999999998876554

>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=99.24  E-value=4.8e-12  Score=94.40  Aligned_cols=107  Identities=14%  Similarity=0.195  Sum_probs=76.2

Q ss_pred             EEEEEeCCCcccc-------------hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         31 RLDILDTAGQEEF-------------SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        31 ~~~l~D~~g~~~~-------------~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      .+.+|||||..++             ..+...|++++|++|+|+|..+.+...  ..|+..+... ...+.|+++|+||+
T Consensus       137 ~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~-~~~~~~~i~V~nK~  213 (360)
T 3t34_A          137 NLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREV-DPSGDRTFGVLTKI  213 (360)
T ss_dssp             SEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHS-CTTCTTEEEEEECG
T ss_pred             CeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHh-cccCCCEEEEEeCC
Confidence            4667999999876             667888999999999999876543221  2233333332 23567999999999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELV  140 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~  140 (159)
                      |+.+......+....++..++.+|+++|++++.++++.+....
T Consensus       214 Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          214 DLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             GGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHH
T ss_pred             ccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHH
Confidence            9976555555555555556678899999999988877655443

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.22  E-value=1.1e-10  Score=83.32  Aligned_cols=99  Identities=15%  Similarity=0.141  Sum_probs=65.5

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhh---------cCCEEEEEEECCChhhHHHH-HHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMR---------SGEGFLLVFSVTDRNSFEEI-YKFH   76 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~---------~~~~ii~v~d~~~~~s~~~~-~~~~   76 (159)
                      +...+.+++.......+..++..  +.||||||++++....+.+++         ++|++++|++++... +... ..|+
T Consensus        63 ~~~~~~~~t~~~~~~~~~~~~~~--l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~il~V~~~d~~~-~~~~~~~~~  139 (262)
T 3def_A           63 RVSPFQAEGLRPVMVSRTMGGFT--INIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVYA-VDELDKQVV  139 (262)
T ss_dssp             CCCSSCC-CCCCEEEEEEETTEE--EEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCSC-CCHHHHHHH
T ss_pred             ccCCCCCcceeeEEEEEEECCee--EEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEEEEEEcCCCCC-CCHHHHHHH
Confidence            45666676666666666777775  556999999877544444433         889999999997754 3333 3666


Q ss_pred             HHHHhhcCCC-CCcEEEEEeCCCCCCcCCCCHH
Q psy11289         77 RQILRVKDRD-EFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        77 ~~i~~~~~~~-~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      ..+....... ..|+++|+||+|+...+....+
T Consensus       140 ~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~e  172 (262)
T 3def_A          140 IAITQTFGKEIWCKTLLVLTHAQFSPPDELSYE  172 (262)
T ss_dssp             HHHHHHHCGGGGGGEEEEEECTTCCCSTTCCHH
T ss_pred             HHHHHHhchhhhcCEEEEEeCcccCCCCCccHH
Confidence            6666654311 2499999999998654444443

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.20  E-value=7.1e-14  Score=110.32  Aligned_cols=96  Identities=18%  Similarity=0.149  Sum_probs=57.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCCh----------hhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR----------NSFEEIYKFHRQILRVKDRDEFP-MLMVGNKAD   98 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~----------~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D   98 (159)
                      ..+.||||||+++|...+...++.+|++|+|+|++++          .+.+.+     .+...   .++| +|+|+||+|
T Consensus       255 ~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l-----~~~~~---lgip~iIvviNKiD  326 (592)
T 3mca_A          255 KIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHA-----YLLRA---LGISEIVVSVNKLD  326 (592)
T ss_dssp             ----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHH-----HHHHH---SSCCCEEEEEECGG
T ss_pred             eEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHH-----HHHHH---cCCCeEEEEEeccc
Confidence            4566799999999987777788899999999999863          233322     12222   3455 899999999


Q ss_pred             CCCcCCCC----HHHHHHHH-HHcCC-----cEEEeCCCCCCCHH
Q psy11289         99 LDHQRQVS----SMDAQNVA-RQLRI-----PYIECSAKVRINVD  133 (159)
Q Consensus        99 ~~~~~~~~----~~~~~~~~-~~~~~-----~~~~~sa~~~~~i~  133 (159)
                      +.+...-.    .++...+. +.+|+     +++++||++|.|+.
T Consensus       327 l~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          327 LMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             GGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             cccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            86421111    12233334 44454     69999999999998

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.18  E-value=6.9e-10  Score=89.15  Aligned_cols=72  Identities=21%  Similarity=0.263  Sum_probs=57.3

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +..++  +.++||||||+.+|...+..+++.+|++|+|+|+++..+......|. .+..    .++|+++++||+|+..
T Consensus        70 ~~~~~--~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~-~~~~----~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           70 AAWEG--HRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWR-QATT----YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             EEETT--EEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHH-HHHH----TTCCEEEEEECTTSTT
T ss_pred             EEECC--eeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHH-HHHH----cCCCEEEEEECCCccc
Confidence            44454  45677999999999988999999999999999999987776655553 3333    4689999999999854

>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=99.15  E-value=1.6e-10  Score=84.35  Aligned_cols=111  Identities=11%  Similarity=0.183  Sum_probs=69.7

Q ss_pred             EEEEEeCCCccc-------------chHHHHHHhhcCCEEEEEEECCChhhH-HHHHHHHHHHHhhcCCCCCcEEEEEeC
Q psy11289         31 RLDILDTAGQEE-------------FSAMREQYMRSGEGFLLVFSVTDRNSF-EEIYKFHRQILRVKDRDEFPMLMVGNK   96 (159)
Q Consensus        31 ~~~l~D~~g~~~-------------~~~~~~~~~~~~~~ii~v~d~~~~~s~-~~~~~~~~~i~~~~~~~~~p~ivv~nK   96 (159)
                      .+.||||||..+             +......+++++|++++|+|.++.... .....+...+    ...+.|+++|+||
T Consensus       132 ~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~----~~~~~~~i~v~NK  207 (315)
T 1jwy_B          132 NLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV----DPEGKRTIGVITK  207 (315)
T ss_dssp             SEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH----CSSCSSEEEEEEC
T ss_pred             CcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh----CCCCCcEEEEEcC
Confidence            466799999854             455677888999999999998443211 1111222222    2256899999999


Q ss_pred             CCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCC------CCCHHHHHHHHHHHHHh
Q psy11289         97 ADLDHQRQVSSMDAQNVARQLRIPYIECSAKV------RINVDQAFHELVRIVLL  145 (159)
Q Consensus        97 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~------~~~i~~~~~~l~~~~~~  145 (159)
                      +|+.+......+........++..++++|+.+      +.|+.++++.+...+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            99875443222222211111235677777664      68999999998877654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.15  E-value=1.3e-10  Score=86.94  Aligned_cols=97  Identities=24%  Similarity=0.289  Sum_probs=73.3

Q ss_pred             CcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHH----HH
Q psy11289         39 GQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQN----VA  114 (159)
Q Consensus        39 g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~----~~  114 (159)
                      .+++|.+..+.+++.++++++|+|++++++     .|...+.++.  .+.|+++|+||+|+.+.. ...+...+    ++
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l--~~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~  128 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA--ADNPILLVGNKADLLPRS-VKYPKLLRWMRRMA  128 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC--TTSCEEEEEECGGGSCTT-CCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh--CCCCEEEEEEChhcCCCc-cCHHHHHHHHHHHH
Confidence            578899999999999999999999999764     3444455543  478999999999996532 22333333    35


Q ss_pred             HHcCC---cEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        115 RQLRI---PYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       115 ~~~~~---~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +..|+   +++.+||++|.|++++++.+.+..
T Consensus       129 ~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          129 EELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            66676   689999999999999999987654

>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=99.11  E-value=2.1e-10  Score=81.58  Aligned_cols=109  Identities=17%  Similarity=0.057  Sum_probs=67.6

Q ss_pred             EEEEEEeCCCcccchHHHH------HHhhcCCEEEEEEECCCh---hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMRE------QYMRSGEGFLLVFSVTDR---NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~------~~~~~~~~ii~v~d~~~~---~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      +.+.||||||.........      ..+.. +++++++|....   ..+.....+......   ..+.|+++|+||+|+.
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~---~~~~p~~iv~NK~D~~  184 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL---RLGATTIPALNKVDLL  184 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH---HHTSCEEEEECCGGGC
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc---ccCCCeEEEEeccccc
Confidence            4567799999976543211      23455 888888887543   333222221111111   1357999999999986


Q ss_pred             CcCCCCHHHHHH----------------------------HHHHcC--CcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        101 HQRQVSSMDAQN----------------------------VARQLR--IPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       101 ~~~~~~~~~~~~----------------------------~~~~~~--~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+  ++...                            ++++++  ++++++||++|.|++++++++.+.+.
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            43221  11111                            123333  47999999999999999999988764

>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=99.10  E-value=4.3e-11  Score=89.12  Aligned_cols=103  Identities=18%  Similarity=0.245  Sum_probs=70.1

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.||||+|....   .......+|++++|+|....+.+..+..         ...+.|.++|+||+|+....... ..
T Consensus       172 ~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~l~~---------~~~~~p~ivVlNK~Dl~~~~~~~-~~  238 (355)
T 3p32_A          172 FDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQGIKK---------GVLELADIVVVNKADGEHHKEAR-LA  238 (355)
T ss_dssp             CCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTTCCT---------TSGGGCSEEEEECCCGGGHHHHH-HH
T ss_pred             CCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHHHHH---------hHhhcCCEEEEECCCCcChhHHH-HH
Confidence            45667999996432   2344589999999999877655433221         11346999999999986432211 11


Q ss_pred             HHHHHHH---c-------CCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        110 AQNVARQ---L-------RIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       110 ~~~~~~~---~-------~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...+...   .       +.+++++||++|.|++++++++.+.+..
T Consensus       239 ~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          239 ARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            1222222   1       5789999999999999999999987754

>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=99.01  E-value=7.7e-11  Score=88.94  Aligned_cols=46  Identities=24%  Similarity=0.309  Sum_probs=32.6

Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHH---HcCCcEEEeCCCCCCCHHHHHH
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVAR---QLRIPYIECSAKVRINVDQAFH  137 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~---~~~~~~~~~sa~~~~~i~~~~~  137 (159)
                      .+|+++|+||.|+..     .+....+.+   ..+.+++++||+.+.++.++++
T Consensus       214 ~kP~i~v~NK~D~~~-----~~~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          214 NKPMVIAANKADAAS-----DEQIKRLVREEEKRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             HSCEEEEEECGGGSC-----HHHHHHHHHHHHHTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCCEEEEEeCccccc-----hHHHHHHHHHHhhcCCcEEEEeccchhhHHHHHh
Confidence            489999999999752     222333333   3377899999999988876543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.00  E-value=4.2e-09  Score=75.46  Aligned_cols=97  Identities=10%  Similarity=0.053  Sum_probs=59.7

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHH-------HHHH--hhcCCEEEEEEECCChhhHHHH-HHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAM-------REQY--MRSGEGFLLVFSVTDRNSFEEI-YKFHRQ   78 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~-------~~~~--~~~~~~ii~v~d~~~~~s~~~~-~~~~~~   78 (159)
                      ..+++++.......+..++..  +.+|||||+.++...       ...+  .+++|++++|+|++.. ++... ..|+..
T Consensus        68 ~~~~~~t~~~~~~~~~~~~~~--l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il~v~~~d~~-~~~~~~~~~~~~  144 (270)
T 1h65_A           68 SPFQSEGPRPVMVSRSRAGFT--LNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAY-RVDNLDKLVAKA  144 (270)
T ss_dssp             CSSSCCCSSCEEEEEEETTEE--EEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCC-CCCHHHHHHHHH
T ss_pred             cCCCCcceeeEEEEEeeCCeE--EEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEEEEEeCCCC-cCCHHHHHHHHH
Confidence            444555544444444555544  566999999776421       1122  2379999999998753 34332 367777


Q ss_pred             HHhhcCC-CCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         79 ILRVKDR-DEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        79 i~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      +...... ...|+++|+||+|+...+..+.+
T Consensus       145 l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~~  175 (270)
T 1h65_A          145 ITDSFGKGIWNKAIVALTHAQFSPPDGLPYD  175 (270)
T ss_dssp             HHHHHCGGGGGGEEEEEECCSCCCGGGCCHH
T ss_pred             HHHHhCcccccCEEEEEECcccCCcCCCCHH
Confidence            6655321 12699999999999765544443

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.99  E-value=4e-10  Score=78.12  Aligned_cols=106  Identities=18%  Similarity=0.165  Sum_probs=70.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.+|||+|+.....   .+...++.+++|+|+++....  ...+..   .    .+.|.++|+||+|+.+......++
T Consensus       109 ~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~--~~~~~~---~----~~~~~iiv~NK~Dl~~~~~~~~~~  176 (221)
T 2wsm_A          109 CDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDV--VEKHPE---I----FRVADLIVINKVALAEAVGADVEK  176 (221)
T ss_dssp             CSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTH--HHHCHH---H----HHTCSEEEEECGGGHHHHTCCHHH
T ss_pred             CCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchh--hhhhhh---h----hhcCCEEEEecccCCcchhhHHHH
Confidence            4566799999521111   111357899999999875421  111111   1    246889999999986543345666


Q ss_pred             HHHHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        110 AQNVARQL--RIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       110 ~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ....++..  +++++++||++|.|++++++++.+.+....
T Consensus       177 ~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~~  216 (221)
T 2wsm_A          177 MKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVHS  216 (221)
T ss_dssp             HHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC---
T ss_pred             HHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHHH
Confidence            66666655  478999999999999999999998875543

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=98.99  E-value=1.3e-08  Score=79.68  Aligned_cols=72  Identities=18%  Similarity=0.218  Sum_probs=55.5

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.+++  ++++|.||||+.+|.......++-+|++|+|+|+.+.-.-+...-| ....+    .++|.++++||+|...
T Consensus        95 ~~~~~--~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~----~~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A           95 FPYRD--RVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLM-DVCRM----RATPVMTFVNKMDREA  166 (548)
T ss_dssp             EEETT--EEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHH-HHHHH----TTCCEEEEEECTTSCC
T ss_pred             EEECC--EEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHH-HHHHH----hCCceEEEEecccchh
Confidence            34455  4567799999999999899999999999999999886544443444 33333    5789999999999743

>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=98.98  E-value=1.5e-09  Score=78.33  Aligned_cols=99  Identities=12%  Similarity=-0.010  Sum_probs=69.5

Q ss_pred             EeCCCcc-cchHHHHHHhhcCCEEEEEEECCChhhHH--HHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH
Q psy11289         35 LDTAGQE-EFSAMREQYMRSGEGFLLVFSVTDRNSFE--EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ  111 (159)
Q Consensus        35 ~D~~g~~-~~~~~~~~~~~~~~~ii~v~d~~~~~s~~--~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  111 (159)
                      -..||+. +........++.+|+++.|+|+.+|.+..  .+.+|+         .++|.++|+||+|+.+...  .+...
T Consensus         4 ~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l---------~~kp~ilVlNK~DL~~~~~--~~~~~   72 (282)
T 1puj_A            4 QWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL---------KNKPRIMLLNKADKADAAV--TQQWK   72 (282)
T ss_dssp             -----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC---------SSSCEEEEEECGGGSCHHH--HHHHH
T ss_pred             cCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH---------CCCCEEEEEECcccCCHHH--HHHHH
Confidence            4578875 33445667788999999999999987764  333332         4689999999999975211  12223


Q ss_pred             HHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        112 NVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       112 ~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .+.+..|++++.+||+++.|+.++++.+.+.+.
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHH
Confidence            444456889999999999999999998877665

>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=98.96  E-value=2.2e-09  Score=87.92  Aligned_cols=70  Identities=20%  Similarity=0.304  Sum_probs=59.2

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ++..+.++||||||+.+|...+..+++.+|++|+|+|+++..+++....|... ..    .++|+++++||+|+.
T Consensus        94 ~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~-~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           94 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQA-LG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHH-HH----TTCEEEEEEECHHHH
T ss_pred             cCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHH-HH----cCCCeEEEEECCCcc
Confidence            45578899999999999999999999999999999999998888776655432 22    468999999999985

>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=98.94  E-value=1.9e-10  Score=87.18  Aligned_cols=113  Identities=12%  Similarity=0.160  Sum_probs=54.9

Q ss_pred             CCeeEEEEEEeCCCcccch-------HHH-------HH-----------HhhcCCEEEEEEECCCh-hhHHHHH-HHHHH
Q psy11289         26 DDIPARLDILDTAGQEEFS-------AMR-------EQ-----------YMRSGEGFLLVFSVTDR-NSFEEIY-KFHRQ   78 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~-------~~~-------~~-----------~~~~~~~ii~v~d~~~~-~s~~~~~-~~~~~   78 (159)
                      ++....+.+||++|...+.       .+.       ..           ++.++++.+++|..+.. .++..+. .|+..
T Consensus        84 ~~~~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~  163 (418)
T 2qag_C           84 GGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKR  163 (418)
T ss_dssp             ---CEEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHH
T ss_pred             CCcccceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHH
Confidence            4555678889999986541       111       11           23445544445544432 3444443 46555


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCH--HHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSS--MDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +.     .++|+|+|+||+|+...+.+..  +.+...+...+++++++|++++.++.++|..+...+
T Consensus       164 L~-----~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          164 LH-----EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HT-----TTSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-----------------C
T ss_pred             Hh-----ccCcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            42     3689999999999876555543  566777888899999999999999999888776543

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.94  E-value=3.5e-12  Score=88.91  Aligned_cols=58  Identities=21%  Similarity=0.134  Sum_probs=47.4

Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVARQL--RIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .|.++|+||+|+.+......++...+++.+  +++++++||++|.|++++|+++.+.+..
T Consensus       165 ~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          165 TADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            467999999998654445567777777765  5789999999999999999999987754

>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=98.92  E-value=2.6e-08  Score=74.18  Aligned_cols=42  Identities=10%  Similarity=0.060  Sum_probs=30.7

Q ss_pred             CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      ..+|+++++|+.|..-....-.+..+.++...+.+++++||+
T Consensus       198 t~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~  239 (363)
T 1jal_A          198 TLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (363)
T ss_dssp             TTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             cCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechH
Confidence            358999999999854212223456677888889999999965

>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=98.87  E-value=1.5e-10  Score=86.12  Aligned_cols=108  Identities=17%  Similarity=0.142  Sum_probs=65.0

Q ss_pred             EEEEEEeCCCcc-------------cchHHHHHHhhcCCEEEE-EEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEe
Q psy11289         30 ARLDILDTAGQE-------------EFSAMREQYMRSGEGFLL-VFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGN   95 (159)
Q Consensus        30 ~~~~l~D~~g~~-------------~~~~~~~~~~~~~~~ii~-v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~n   95 (159)
                      ..+.||||||..             .+..+...|+++++.+++ +.|.+....-.....++..+    ...+.|+++|+|
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~----~~~~~~~i~V~N  205 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEV----DPQGQRTIGVIT  205 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHH----CTTCTTEEEEEE
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHh----CcCCCceEEEec
Confidence            346779999963             345677788877665555 45554422211222233222    235789999999


Q ss_pred             CCCCCCcCCCCHHHHHH--HHHHcC-CcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         96 KADLDHQRQVSSMDAQN--VARQLR-IPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        96 K~D~~~~~~~~~~~~~~--~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      |+|+.+......+....  +....+ .+++++||+++.|++++++++..
T Consensus       206 K~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          206 KLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             CGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             cccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            99987543311211110  000123 24678999999999999998876

>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=98.85  E-value=6.6e-09  Score=76.93  Aligned_cols=103  Identities=20%  Similarity=0.262  Sum_probs=63.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH--
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS--  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~--  107 (159)
                      +.+.||||||......   ...+.+|++++|+|+++.+.+..+..   ..      .+.|.++|+||+|+.+...+..  
T Consensus       149 ~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~------~~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          149 YDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL------MEVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             CSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH------HHHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh------hcccCEEEEECCCCCChHHHHHHH
Confidence            3466799999865432   34689999999999976543221111   00      1458899999999864221111  


Q ss_pred             HHHHHHHHHc-------CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        108 MDAQNVARQL-------RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       108 ~~~~~~~~~~-------~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ++.......+       ..+++++||++|.|++++++.+.+.+.
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            1111111122       346899999999999999999998764

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.80  E-value=4.6e-08  Score=72.66  Aligned_cols=101  Identities=14%  Similarity=0.127  Sum_probs=61.1

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA  110 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  110 (159)
                      .+.|+||+|....   .......+|.+++|+|++++.....+..   .+      ...|.++|+||+|+.+.... ....
T Consensus       168 ~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i------l~~~~ivVlNK~Dl~~~~~~-~~~~  234 (349)
T 2www_A          168 DIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI------IEMADLVAVTKSDGDLIVPA-RRIQ  234 (349)
T ss_dssp             SEEEEECCCC--C---HHHHHTTCSEEEEEECCC---------------------CCSCSEEEECCCSGGGHHHH-HHHH
T ss_pred             CEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH------HhcCCEEEEeeecCCCchhH-HHHH
Confidence            3566999997432   2344678999999999987644322211   11      24588999999998532111 0112


Q ss_pred             HHHHHH----------cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        111 QNVARQ----------LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       111 ~~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ..+...          .+.+++.+||++|.|++++++++.+.+.
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            222221          1356899999999999999999988763

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=98.77  E-value=1.2e-08  Score=81.24  Aligned_cols=66  Identities=23%  Similarity=0.348  Sum_probs=50.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .+++|.||||+.+|......-++-+|++|+|+|+.+.-.-+...-| ....+    .++|.+++.||+|..
T Consensus        67 ~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~-~~a~~----~~lp~i~~INKmDr~  132 (638)
T 3j25_A           67 TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILF-HALRK----MGIPTIFFINKIDQN  132 (638)
T ss_dssp             CBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHH-HHHHH----HTCSCEECCEECCSS
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHH-HHHHH----cCCCeEEEEeccccc
Confidence            4567799999999999999999999999999999875333332223 33333    457889999999974

>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=98.75  E-value=1.8e-07  Score=69.84  Aligned_cols=49  Identities=16%  Similarity=0.168  Sum_probs=34.6

Q ss_pred             CCcEEEEEeCCCCC--Cc-CCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHH
Q psy11289         87 EFPMLMVGNKADLD--HQ-RQVSSMDAQNVARQLRIPYIECSAKVRINVDQA  135 (159)
Q Consensus        87 ~~p~ivv~nK~D~~--~~-~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~  135 (159)
                      .+|+++++||.|..  +. +....+..+.+++..+.+++++||+.+.++.++
T Consensus       201 ~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL  252 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAEL  252 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTS
T ss_pred             cCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHh
Confidence            47999999999742  21 123356677888888999999999874444433

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=98.73  E-value=2.4e-07  Score=74.69  Aligned_cols=67  Identities=25%  Similarity=0.341  Sum_probs=53.5

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      .+.++|.||||+.+|.......++-+|++|+|+|+...-..+...-| .+..+    .++|.+++.||+|..
T Consensus        84 ~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~-~~a~~----~~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           84 NYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVW-RQANK----YGVPRIVYVNKMDRQ  150 (709)
T ss_dssp             CEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHH----HTCCEEEEEECSSST
T ss_pred             CEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHH-HHHHH----cCCCeEEEEcccccc
Confidence            57889999999999999999999999999999999875444433333 33333    467999999999974

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.67  E-value=5e-08  Score=76.50  Aligned_cols=68  Identities=22%  Similarity=0.258  Sum_probs=52.6

Q ss_pred             EEEEEeCCCccc-----------chHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCC
Q psy11289         31 RLDILDTAGQEE-----------FSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL   99 (159)
Q Consensus        31 ~~~l~D~~g~~~-----------~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~   99 (159)
                      .+.||||||...           |...+..++..+|++|+|+|+++.........|+..+..    .+.|+++|+||+|+
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~----~~~pvilVlNK~Dl  230 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG----HEDKIRVVLNKADM  230 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT----CGGGEEEEEECGGG
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh----cCCCEEEEEECCCc
Confidence            467899999875           556777889999999999999886555555566655432    46799999999998


Q ss_pred             CCc
Q psy11289        100 DHQ  102 (159)
Q Consensus       100 ~~~  102 (159)
                      ...
T Consensus       231 ~~~  233 (550)
T 2qpt_A          231 VET  233 (550)
T ss_dssp             SCH
T ss_pred             cCH
Confidence            753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.54  E-value=5.9e-08  Score=69.32  Aligned_cols=93  Identities=9%  Similarity=-0.059  Sum_probs=62.1

Q ss_pred             CCCcccc-hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHH
Q psy11289         37 TAGQEEF-SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVAR  115 (159)
Q Consensus        37 ~~g~~~~-~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~  115 (159)
                      .||+... .......++++|+++.|+|+.+|.+.....     +. +.   ++|.++|.||+|+.+...  .+....+.+
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~-----l~-ll---~k~~iivlNK~DL~~~~~--~~~~~~~~~   72 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG-----VD-FS---RKETIILLNKVDIADEKT--TKKWVEFFK   72 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT-----SC-CT---TSEEEEEEECGGGSCHHH--HHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH-----HH-hc---CCCcEEEEECccCCCHHH--HHHHHHHHH
Confidence            4666533 335667788999999999999987764311     11 11   689999999999975311  122234455


Q ss_pred             HcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289        116 QLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus       116 ~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      ..|+++ .+||+++.|++++++.+..
T Consensus        73 ~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           73 KQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            568888 9999999999998877643

>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=98.53  E-value=4.4e-08  Score=79.12  Aligned_cols=105  Identities=15%  Similarity=0.077  Sum_probs=67.9

Q ss_pred             EEEEeCCCccc-------------chHHHHHHh-hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         32 LDILDTAGQEE-------------FSAMREQYM-RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        32 ~~l~D~~g~~~-------------~~~~~~~~~-~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      +.|+||||..+             ...+...|+ ..+|++++|.|++++.+-.+...++..+.    ..+.|+++|.||+
T Consensus       152 L~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~----~~g~pvIlVlNKi  227 (772)
T 3zvr_A          152 LTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD----PQGQRTIGVITKL  227 (772)
T ss_dssp             EEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHC----TTCSSEEEEEECT
T ss_pred             eEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHH----hcCCCEEEEEeCc
Confidence            45599999654             223445555 47899999999987533323222233332    2568999999999


Q ss_pred             CCCCcCCCCHHHHHHHHHH----cC-CcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQ----LR-IPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~----~~-~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      |+.+..........  .+.    ++ .+++.+||++|.|++++++.+...
T Consensus       228 Dlv~~~~~~~~il~--~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          228 DLMDEGTDARDVLE--NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TSSCTTCCSHHHHT--TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCcchhhHHHHH--HHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            98765443322111  111    12 246789999999999999998863

>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=98.46  E-value=3.2e-08  Score=72.19  Aligned_cols=88  Identities=13%  Similarity=0.086  Sum_probs=59.1

Q ss_pred             HHHHHhhcCCEEEEEEECCChhh-HHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCC--CHHHHHHHHHHcCCcEE
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRNS-FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV--SSMDAQNVARQLRIPYI  122 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~s-~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~  122 (159)
                      +.+..+.++|.+++|+|+.+|.. ...+.+++....    ..++|+++|.||+|+.+....  ..+......+..|.+++
T Consensus        79 l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~----~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~  154 (307)
T 1t9h_A           79 LIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE----ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVY  154 (307)
T ss_dssp             ETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH----TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             hhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH----HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEE
Confidence            33446889999999999997654 444444443322    257899999999999753210  01223344445689999


Q ss_pred             EeCCCCCCCHHHHHH
Q psy11289        123 ECSAKVRINVDQAFH  137 (159)
Q Consensus       123 ~~sa~~~~~i~~~~~  137 (159)
                      .+||.++.|++++++
T Consensus       155 ~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          155 LTSSKDQDSLADIIP  169 (307)
T ss_dssp             ECCHHHHTTCTTTGG
T ss_pred             EEecCCCCCHHHHHh
Confidence            999998888776543

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.40  E-value=1.1e-06  Score=64.84  Aligned_cols=102  Identities=18%  Similarity=0.149  Sum_probs=62.1

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDA  110 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  110 (159)
                      .+.|+||+|......   .....+|.+++++|....+..+.+...   +      ...|.+++.||+|+......+....
T Consensus       149 ~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~~~i~~~---i------~~~~~ivvlNK~Dl~~~~~~s~~~~  216 (337)
T 2qm8_A          149 DVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKG---I------FELADMIAVNKADDGDGERRASAAA  216 (337)
T ss_dssp             CEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTT---H------HHHCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccHHHHHHH---H------hccccEEEEEchhccCchhHHHHHH
Confidence            355599999864322   335789999999998754432211111   1      1235577789999643222222222


Q ss_pred             HHHHHHc----------CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        111 QNVARQL----------RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       111 ~~~~~~~----------~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ..+....          +.+++.+||+++.|++++++.+.+...
T Consensus       217 ~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          217 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            3333321          346899999999999999999988654

>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=98.21  E-value=3.7e-06  Score=62.51  Aligned_cols=83  Identities=13%  Similarity=0.117  Sum_probs=55.3

Q ss_pred             hhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC-HHHHHHHHHHcCCcEEEeCCCC
Q psy11289         51 MRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS-SMDAQNVARQLRIPYIECSAKV  128 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~~~~~~~sa~~  128 (159)
                      ..++|.+++|.+.. |. +...+.+++.....    .++|+++|.||+|+.+..... .+.........|++++.+||.+
T Consensus       128 ~anvD~v~iv~a~~-P~~~~~~i~r~L~~a~~----~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          128 AANIDQIVIVSAIL-PELSLNIIDRYLVGCET----LQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EECCCEEEEEEEST-TTCCHHHHHHHHHHHHH----HTCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HhcCCEEEEEEeCC-CCCCHHHHHHHHHHHHh----cCCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            57899999987654 54 34445555543322    467889999999997532100 1112233345689999999999


Q ss_pred             CCCHHHHHHH
Q psy11289        129 RINVDQAFHE  138 (159)
Q Consensus       129 ~~~i~~~~~~  138 (159)
                      +.|++++...
T Consensus       203 ~~gl~~L~~~  212 (358)
T 2rcn_A          203 QDGLKPLEEA  212 (358)
T ss_dssp             TBTHHHHHHH
T ss_pred             CcCHHHHHHh
Confidence            9999987654

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.21  E-value=4e-05  Score=57.34  Aligned_cols=111  Identities=13%  Similarity=0.052  Sum_probs=72.2

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchH----H---HHHHhhcCCEEEEEEECCChhh-HHHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA----M---REQYMRSGEGFLLVFSVTDRNS-FEEIYKFHR   77 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~----~---~~~~~~~~~~ii~v~d~~~~~s-~~~~~~~~~   77 (159)
                      ....+|+.|+-+.....+.+++.++  +|.||||..+-.+    +   .-..++.+|++++|+|+++|.. .+.+..-+.
T Consensus        97 ~~v~~~pftT~~~~~g~~~~~~~~i--~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~vvD~~~p~~~~~~i~~EL~  174 (376)
T 4a9a_A           97 SEAAEYEFTTLVTVPGVIRYKGAKI--QMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFIILDVNKPLHHKQIIEKELE  174 (376)
T ss_dssp             CCGGGTCSSCCCEEEEEEEETTEEE--EEEECGGGCCC-----CHHHHHHHHHHHCSEEEEEEETTSHHHHHHHHHHHHH
T ss_pred             CcccCCCCceeeeeeEEEEeCCcEE--EEEeCCCccCCchhhhHHHHHHHHHHHhcCccccccccCccHHHHHHHHHHHH
Confidence            4567888998888888888888875  5599999854322    1   2234678999999999998743 222222222


Q ss_pred             HHHhhcCCCCCcEEEEEeCCCCCC--------cCCCCHHHHHHHHHHcCCc
Q psy11289         78 QILRVKDRDEFPMLMVGNKADLDH--------QRQVSSMDAQNVARQLRIP  120 (159)
Q Consensus        78 ~i~~~~~~~~~p~ivv~nK~D~~~--------~~~~~~~~~~~~~~~~~~~  120 (159)
                      .+..  .....|.+++.||.|...        ....+.++...+...+.+.
T Consensus       175 ~~~~--~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt  223 (376)
T 4a9a_A          175 GVGI--RLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRIN  223 (376)
T ss_dssp             HTTE--EETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCC
T ss_pred             HhhH--hhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhccc
Confidence            2111  124578889999999632        2345667777776666543

>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=97.58  E-value=0.0024  Score=48.08  Aligned_cols=57  Identities=11%  Similarity=0.044  Sum_probs=40.4

Q ss_pred             CCcEEEEEeCCCCC--CcCCCCHHHHHHHHHHcC--CcEEEeCCCC---------------------CCCHHHHHHHHHH
Q psy11289         87 EFPMLMVGNKADLD--HQRQVSSMDAQNVARQLR--IPYIECSAKV---------------------RINVDQAFHELVR  141 (159)
Q Consensus        87 ~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~~--~~~~~~sa~~---------------------~~~i~~~~~~l~~  141 (159)
                      ..|++.++|+.|..  ....--.+...+++...+  .+++.+||..                     +.|++.+.+...+
T Consensus       224 ~kp~~y~~Nv~e~~~~~~~~~~~~~~~~~~~~~~p~~~~v~~sa~~E~~l~~l~~~~~~~~l~~~g~~~gl~~~i~~~~~  303 (392)
T 1ni3_A          224 AKPVIYLVNMSERDFLRQKNKYLPKIKKWIDENSPGDTLIPMSVAFEERLTNFTEEEAIEECKKLNTKSMLPKIIVTGYN  303 (392)
T ss_dssp             GSCEEEEEECCHHHHTTTCCSSHHHHHHHHHTTSTTCCEEEECHHHHHHHTTSCHHHHHHHHHHTTCCCSHHHHHHHHHH
T ss_pred             cCceEEEEEecchhhcccchHHHHHHHHHHHhcCCCCeEEEEEhHHHHHHhhCCHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence            48999999999832  111222556777877765  7899999875                     5778888877765


Q ss_pred             HH
Q psy11289        142 IV  143 (159)
Q Consensus       142 ~~  143 (159)
                      .+
T Consensus       304 ~L  305 (392)
T 1ni3_A          304 AL  305 (392)
T ss_dssp             HT
T ss_pred             Hh
Confidence            44

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=97.49  E-value=0.0001  Score=55.51  Aligned_cols=39  Identities=15%  Similarity=0.187  Sum_probs=23.9

Q ss_pred             EEEEEEeCCCcccchH-------HHHHHhhcCCEEEEEEECCChhh
Q psy11289         30 ARLDILDTAGQEEFSA-------MREQYMRSGEGFLLVFSVTDRNS   68 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-------~~~~~~~~~~~ii~v~d~~~~~s   68 (159)
                      ..+++|||||..++.+       .+..+++++|++++|+|+++.++
T Consensus        86 ~~i~lvDtpGl~~~as~~~glg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A           86 AFLNVVDIAGLVKGAHNGQGLGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             CEEEEEECCC-----------CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             cccEEEECCCcccccchhhHHHHHHHHHHHhcCeEEEEEecCCCcc
Confidence            3588899999987654       45667899999999999986443

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.13  E-value=0.00074  Score=52.42  Aligned_cols=101  Identities=12%  Similarity=0.154  Sum_probs=61.4

Q ss_pred             EEEEEEeCCCcccch-HHHHH---H--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCc
Q psy11289         30 ARLDILDTAGQEEFS-AMREQ---Y--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQ  102 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~-~~~~~---~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~  102 (159)
                      +.+.|+||||..... .++..   .  ...+|.+++|+|+.........   ...+..     ..|+ ++|.||.|....
T Consensus       184 ~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~---a~~~~~-----~~~i~gvVlNK~D~~~~  255 (504)
T 2j37_W          184 FEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQ---AKAFKD-----KVDVASVIVTKLDGHAK  255 (504)
T ss_dssp             CCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHH---HHHHHH-----HHCCCCEEEECTTSCCC
T ss_pred             CcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHH---HHHHHh-----hcCceEEEEeCCccccc
Confidence            346669999986432 12211   1  2278999999999875432111   122222     1464 789999997532


Q ss_pred             CCCCHHHHHHHHHHcCCcE------------------EEeCCCCCCC-HHHHHHHHHHH
Q psy11289        103 RQVSSMDAQNVARQLRIPY------------------IECSAKVRIN-VDQAFHELVRI  142 (159)
Q Consensus       103 ~~~~~~~~~~~~~~~~~~~------------------~~~sa~~~~~-i~~~~~~l~~~  142 (159)
                      ..    .........++|+                  +.+|+..|.| +.++++++.+.
T Consensus       256 ~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          256 GG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             hH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            21    1233444556554                  2368889988 99988888765

>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=96.10  E-value=0.055  Score=41.32  Aligned_cols=86  Identities=15%  Similarity=0.030  Sum_probs=51.2

Q ss_pred             EEEEEEeCCCcccchH-HHH-----HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         30 ARLDILDTAGQEEFSA-MRE-----QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-~~~-----~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      +.+.|+||+|...... +..     .....+|.+++|.|++........   ...+...    -.+..+|.||.|.... 
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~---a~~f~~~----~~i~gVIlTKlD~~~~-  254 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQ---ALAFKEA----TPIGSIIVTKLDGSAK-  254 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH---HHHHHHS----CTTEEEEEECCSSCSS-
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHH---HHHHHhh----CCCeEEEEECCCCccc-
Confidence            4456799999754321 111     112367999999999865433222   2233321    1356788999997532 


Q ss_pred             CCCHHHHHHHHHHcCCcEEEeCC
Q psy11289        104 QVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                         ...+..+....++|+..++.
T Consensus       255 ---gG~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          255 ---GGGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             ---HHHHHHHHHTTCCCEEEEEC
T ss_pred             ---ccHHHHHHHHHCCCEEEEEc
Confidence               23345566678899877765

>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=95.80  E-value=0.045  Score=36.62  Aligned_cols=86  Identities=7%  Similarity=-0.002  Sum_probs=54.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC-CCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD-RDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      +.+.++|+|+..  .......+..+|.++++...+...  ..+...+..+.+... ..+.++.+|.|+.|...  .. ..
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~--~~-~~  148 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMA--TM-LN  148 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTE--EE-EH
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCc--hH-HH
Confidence            445679999875  334556667799999999876544  566666666655432 23467789999998432  11 23


Q ss_pred             HHHHHHHHcCCcEE
Q psy11289        109 DAQNVARQLRIPYI  122 (159)
Q Consensus       109 ~~~~~~~~~~~~~~  122 (159)
                      +..++.++++.+++
T Consensus       149 ~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          149 VLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHTCCBC
T ss_pred             HHHHHHHHcCCcee
Confidence            45555566665544

>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=95.16  E-value=0.19  Score=36.24  Aligned_cols=91  Identities=15%  Similarity=0.084  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCccc--chH-HHH-----HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCCC
Q psy11289         30 ARLDILDTAGQEE--FSA-MRE-----QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADLD  100 (159)
Q Consensus        30 ~~~~l~D~~g~~~--~~~-~~~-----~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~~  100 (159)
                      +.+.+.||||...  ... +..     .....+|.+++|.|+.....   .......+..     ..| ..+|.||.|..
T Consensus       181 ~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~~-----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          181 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDLASKFNQ-----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHHHHHHHH-----TCTTEEEEEECGGGC
T ss_pred             CCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHHHHHHHh-----hCCCCEEEEeCCCCC
Confidence            3456699999876  322 221     12447899999999875322   2111222222     245 67889999964


Q ss_pred             CcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289        101 HQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                      .    .......++...++|+..++  +|.++++
T Consensus       253 ~----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          253 A----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             T----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             c----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence            2    13345567778889987766  4555543

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.36  E-value=0.64  Score=31.35  Aligned_cols=85  Identities=8%  Similarity=0.055  Sum_probs=54.2

Q ss_pred             EEEEEEeCCCc-ccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         30 ARLDILDTAGQ-EEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        30 ~~~~l~D~~g~-~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      +.+.+.|+|+. ...  .....+..+|.+|++... +..++..+...++.+.+..   +.++.+|.|+.+.... .. ..
T Consensus        68 yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~-~~~~~~~~~~~~~~l~~~~---~~~~~vv~N~~~~~~~-~~-~~  139 (209)
T 3cwq_A           68 YQNIVIDTQARPEDE--DLEALADGCDLLVIPSTP-DALALDALMLTIETLQKLG---NNRFRILLTIIPPYPS-KD-GD  139 (209)
T ss_dssp             CSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECS-SHHHHHHHHHHHHHHHHTC---SSSEEEEECSBCCTTS-CH-HH
T ss_pred             CCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecC-CchhHHHHHHHHHHHHhcc---CCCEEEEEEecCCccc-hH-HH
Confidence            44566999987 432  344566789999999876 4566777776666665532   4568899999985320 11 34


Q ss_pred             HHHHHHHHcCCcEE
Q psy11289        109 DAQNVARQLRIPYI  122 (159)
Q Consensus       109 ~~~~~~~~~~~~~~  122 (159)
                      +..+..+++|.+++
T Consensus       140 ~~~~~l~~~g~~v~  153 (209)
T 3cwq_A          140 EARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHHTTCCBC
T ss_pred             HHHHHHHHcCCchh
Confidence            44555555665544

>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=93.93  E-value=0.2  Score=38.14  Aligned_cols=86  Identities=12%  Similarity=0.041  Sum_probs=51.2

Q ss_pred             EEEEEEeCCCccc--ch-HHH---HHH--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEE--FS-AMR---EQY--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~--~~-~~~---~~~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.+.|.||+|...  .. .+.   ...  .-.++.+++|.|+.........   ...+.+..    .+..+|.||.|...
T Consensus       180 ~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~---a~~f~~~~----~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          180 MDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDL---ASRFHQAS----PIGSVIITKMDGTA  252 (433)
T ss_dssp             CSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHH---HHHHHHHC----SSEEEEEECGGGCS
T ss_pred             CCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHH---HHHHhccc----CCcEEEEecccccc
Confidence            3455799999644  11 111   111  2256999999999865433222   23333321    25678999999642


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEeCC
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                          ....+.......++|+..++.
T Consensus       253 ----~~G~als~~~~~g~Pi~fig~  273 (433)
T 3kl4_A          253 ----KGGGALSAVVATGATIKFIGT  273 (433)
T ss_dssp             ----CHHHHHHHHHHHTCEEEEEEC
T ss_pred             ----cchHHHHHHHHHCCCEEEEEC
Confidence                233455666678999877775

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=93.49  E-value=1  Score=30.79  Aligned_cols=88  Identities=10%  Similarity=0.106  Sum_probs=57.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.++|+|+...  ......+..+|.++++... +..+...+..+++.+.+... ....+-+|.|+.+...  ....  
T Consensus       119 yD~viiD~p~~~~--~~~~~~l~~ad~viiv~~~-~~~~~~~~~~~~~~l~~~~~-~~~~~~~v~N~~~~~~--~~~~--  190 (245)
T 3ea0_A          119 YDYIIVDFGASID--HVGVWVLEHLDELCIVTTP-SLQSLRRAGQLLKLCKEFEK-PISRIEIILNRADTNS--RITS--  190 (245)
T ss_dssp             CSEEEEEEESSCC--TTHHHHGGGCSEEEEEECS-SHHHHHHHHHHHHHHHTCSS-CCSCEEEEEESTTSCT--TSCH--
T ss_pred             CCEEEEeCCCCCc--hHHHHHHHHCCEEEEEecC-cHHHHHHHHHHHHHHHHhCC-CccceEEEEecCCCCC--CCCH--
Confidence            4566799997643  2345567789999999876 46777777777777755431 2345778899998532  2333  


Q ss_pred             HHHHHHHcCCcEEEeCC
Q psy11289        110 AQNVARQLRIPYIECSA  126 (159)
Q Consensus       110 ~~~~~~~~~~~~~~~sa  126 (159)
                       ..+.+.++.+++.+-.
T Consensus       191 -~~~~~~~~~~v~~~ip  206 (245)
T 3ea0_A          191 -DEIEKVIGRPISKRIP  206 (245)
T ss_dssp             -HHHHHHHTSCEEEEEC
T ss_pred             -HHHHHHhCCCeEEECC
Confidence             3455567887765533

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=92.97  E-value=0.84  Score=31.83  Aligned_cols=90  Identities=10%  Similarity=0.056  Sum_probs=52.2

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCC-----c
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDH-----Q  102 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~-----~  102 (159)
                      .+.+.|+|+|+..............+|.+|++...+ ..+...+...+..+.+    .+.+++ +|.|+.|...     .
T Consensus       128 ~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~-~~s~~~~~~~~~~l~~----~~~~~~gvV~N~~~~~~~~~~~~  202 (262)
T 2ph1_A          128 ELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQ-ELTAVIVEKAINMAEE----TNTSVLGLVENMSYFVCPNCGHK  202 (262)
T ss_dssp             SCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSS-SCCHHHHHHHHHHHHT----TTCCEEEEEETTCCEECTTTCCE
T ss_pred             CCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCc-cchHHHHHHHHHHHHh----CCCCEEEEEECCCccCCcccccc
Confidence            355667999986532222222223689999998765 3455566665555543    345666 8899987421     1


Q ss_pred             CCC-CHHHHHHHHHHcCCcEEE
Q psy11289        103 RQV-SSMDAQNVARQLRIPYIE  123 (159)
Q Consensus       103 ~~~-~~~~~~~~~~~~~~~~~~  123 (159)
                      ..+ .......+++.++.+++.
T Consensus       203 ~~~~~~~~~~~~~~~~g~~~~~  224 (262)
T 2ph1_A          203 SYIFGEGKGESLAKKYNIGFFT  224 (262)
T ss_dssp             ECTTCCCCHHHHHHHTTCSEEE
T ss_pred             cccccccHHHHHHHHcCCCeEE
Confidence            111 112245667778888665

>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=92.92  E-value=1.7  Score=33.04  Aligned_cols=83  Identities=18%  Similarity=0.120  Sum_probs=47.9

Q ss_pred             EEEEEEeCCCcccchH-HHHH---H--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC-c-EEEEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEEFSA-MREQ---Y--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF-P-MLMVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-~~~~---~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-p-~ivv~nK~D~~~  101 (159)
                      +.+.|+||+|...... +...   .  +..+|.+++|.|+......   ....   ....  ... | ..+|.||.|...
T Consensus       181 ~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~---~~~~---~~~~--~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          181 ADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQA---GIQA---KAFK--EAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             CSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGH---HHHH---HHHH--TTSCSCEEEEEECSSSCS
T ss_pred             CCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHH---HHHH---HHHh--hcccCCeEEEEeCCCCcc
Confidence            3456699999865422 1111   1  1268999999998765321   1111   2222  234 5 788999999743


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEe
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIEC  124 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~  124 (159)
                      ..    .....+....+.|+..+
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    23345666778776555

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=92.90  E-value=0.85  Score=31.68  Aligned_cols=68  Identities=13%  Similarity=0.128  Sum_probs=41.6

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc--CCCCCcEE-EEEeCCCC
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK--DRDEFPML-MVGNKADL   99 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~--~~~~~p~i-vv~nK~D~   99 (159)
                      .+.+.|+|+|+....  .....+..+|.+|++...+. .++..+..+++.+....  ...+.+++ +|.|+.+.
T Consensus       111 ~yD~iiiD~pp~~~~--~~~~~l~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~  181 (257)
T 1wcv_1          111 GYDLVLLDAPPSLSP--LTLNALAAAEGVVVPVQAEY-YALEGVAGLLATLEEVRAGLNPRLRLLGILVTMYDG  181 (257)
T ss_dssp             TCSEEEEECCSSCCH--HHHHHHHHCSEEEEEEESST-HHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESBCT
T ss_pred             CCCEEEEeCCCCCCH--HHHHHHHHCCeEEEEecCch-HHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeECC
Confidence            345667999976432  23445567999999998754 44554444444443321  12456664 88999884

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=91.40  E-value=1.1  Score=31.25  Aligned_cols=64  Identities=8%  Similarity=0.150  Sum_probs=44.5

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKAD   98 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D   98 (159)
                      +.+.|+|+|+...  ......+..+|.+|++...+ ..+...+...+..+....  .+.++.+|.|+.+
T Consensus       145 yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~~vv~N~~~  208 (267)
T 3k9g_A          145 YDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAE-KWAVESLDLFNFFVRKLN--LFLPIFLIITRFK  208 (267)
T ss_dssp             CSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESC-TTHHHHHHHHHHHHHTTT--CCCCEEEEEEEEC
T ss_pred             CCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCC-hHHHHHHHHHHHHHHHHh--ccCCEEEEEeccc
Confidence            4456799997642  33455666799999999874 556666666666665543  3567788999984

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=91.28  E-value=2.6  Score=29.12  Aligned_cols=83  Identities=17%  Similarity=0.113  Sum_probs=52.2

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.|+|+|+...  ......+..+|.+|++... +..+...+...+..+.+.   ...+.-+|.|+.+.....    ..
T Consensus       111 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~-~~~~~~~~~~~~~~l~~~---~~~~~~vv~N~~~~~~~~----~~  180 (263)
T 1hyq_A          111 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNP-EISSITDGLKTKIVAERL---GTKVLGVVVNRITTLGIE----MA  180 (263)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECS-SHHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTTTHH----HH
T ss_pred             CCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCC-ChhHHHHHHHHHHHHHhc---CCCeeEEEEccCCccccc----ch
Confidence            4466799997643  3345566789999999875 455666776666666554   123455789998853211    33


Q ss_pred             HHHHHHHcCCcEE
Q psy11289        110 AQNVARQLRIPYI  122 (159)
Q Consensus       110 ~~~~~~~~~~~~~  122 (159)
                      ...+.+.++.+++
T Consensus       181 ~~~~~~~~~~~~~  193 (263)
T 1hyq_A          181 KNEIEAILEAKVI  193 (263)
T ss_dssp             HHHHHHHTTSCEE
T ss_pred             HHHHHHHhCCCeE
Confidence            4555666776643

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=91.10  E-value=0.011  Score=44.12  Aligned_cols=95  Identities=11%  Similarity=-0.004  Sum_probs=54.7

Q ss_pred             EEEEeCCCcccchH--------HHHHHh--hcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         32 LDILDTAGQEEFSA--------MREQYM--RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        32 ~~l~D~~g~~~~~~--------~~~~~~--~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.++||||.....+        ....++  +..+.++++.+....--+..+.+    + ......+.|++++.||.|..+
T Consensus       214 ~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----l-~~l~~~~~~~~~v~~k~d~~~  288 (369)
T 3ec1_A          214 ATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPRVYQLNEGQTLFFGGLAR----L-DYIKGGRRSFVCYMANELTVH  288 (369)
T ss_dssp             CEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCEEEEECTTEEEEETTTEE----E-EEEESSSEEEEEEECTTSCEE
T ss_pred             eEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCceEEEEcCCceEEECCEEE----E-EEccCCCceEEEEecCCcccc
Confidence            46699999753321        122222  67899999998743211111110    1 111224679999999999865


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCH
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIECSAKVRINV  132 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  132 (159)
                      ...... ....+.+.+|..+...++.+..++
T Consensus       289 ~~~~~~-~~~~~~~~~g~~l~p~~~~~~~~~  318 (369)
T 3ec1_A          289 RTKLEK-ADSLYANQLGELLSPPSKRYAAEF  318 (369)
T ss_dssp             EEEGGG-HHHHHHHHBTTTBCSSCGGGTTTC
T ss_pred             cccHHH-HHHHHHHhcCCccCCCCchhhhhc
Confidence            444422 334566677877766666654443

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=90.30  E-value=3  Score=28.21  Aligned_cols=83  Identities=14%  Similarity=0.153  Sum_probs=51.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHH
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD  109 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  109 (159)
                      +.+.++|+|+...  ......+..+|.++++... +..+...+...+..+.+.   .....-+|.|+.+..... ...  
T Consensus       112 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~-~~~~~~~~~~~~~~l~~~---~~~~~~vv~N~~~~~~~~-~~~--  182 (237)
T 1g3q_A          112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNP-EISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSDRD-IPP--  182 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECS-CHHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCTTC-CCH--
T ss_pred             CCEEEEECCCCcC--HHHHHHHHHCCeEEEEecC-CcccHHHHHHHHHHHHhC---CCceEEEEEecCCcccch-hHH--
Confidence            4566799997643  3345667889999999876 456677776666666553   123456788999854322 222  


Q ss_pred             HHHHHHHcCCcEE
Q psy11289        110 AQNVARQLRIPYI  122 (159)
Q Consensus       110 ~~~~~~~~~~~~~  122 (159)
                       ..+.+.++.+++
T Consensus       183 -~~~~~~~~~~~~  194 (237)
T 1g3q_A          183 -EAAEDVMEVPLL  194 (237)
T ss_dssp             -HHHHHHHCSCEE
T ss_pred             -HHHHHHhCccce
Confidence             344455676643

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=89.76  E-value=3.7  Score=28.43  Aligned_cols=88  Identities=10%  Similarity=0.053  Sum_probs=53.5

Q ss_pred             EEEEEEeCCCcccchHH-HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSAM-REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~-~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~~~~~~  107 (159)
                      +.+.|+|++|......+ .......+|.++++... +..++..+..++..+.......+.++ -+|.|+.+..    ...
T Consensus       116 yD~iiiD~~~~~~~~~~~~~~~~~~aD~viiv~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----~~~  190 (269)
T 1cp2_A          116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVA----NEY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSS----CCH
T ss_pred             CCEEEEeCCchhhhhhhhhhhhHhhCCEEEEeecC-chhhHHHHHHHHHHHHHHHhcCCCcEEEEEeecCCcc----hhH
Confidence            45667999986432221 12223468999998876 45667777666666665543234554 5788998632    234


Q ss_pred             HHHHHHHHHcCCcEE
Q psy11289        108 MDAQNVARQLRIPYI  122 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~  122 (159)
                      +....+.+.++.+++
T Consensus       191 ~~~~~l~~~~~~~v~  205 (269)
T 1cp2_A          191 ELLDAFAKELGSQLI  205 (269)
T ss_dssp             HHHHHHHHHHTCCEE
T ss_pred             HHHHHHHHHcCCccc
Confidence            455666677777654

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=89.44  E-value=0.71  Score=31.88  Aligned_cols=115  Identities=10%  Similarity=0.111  Sum_probs=66.0

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcC-----CCCCcEEEEEeCCCCCC--
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKD-----RDEFPMLMVGNKADLDH--  101 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-----~~~~p~ivv~nK~D~~~--  101 (159)
                      .+.+.++|+|+...  ......+..+|.++++... +..++..+..++..+.....     ......-+|.|+.+...  
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~~~~  189 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNP-EVSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVS  189 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECS-SHHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHHHHH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecC-ChhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCccccc
Confidence            45567799997543  3455667789999999986 46677777666665544321     01246778899988421  


Q ss_pred             -cCCCCHHHHHHHHHHcCCcEEEe---CC--------------CCCCCHHHHHHHHHHHHHhcccc
Q psy11289        102 -QRQVSSMDAQNVARQLRIPYIEC---SA--------------KVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus       102 -~~~~~~~~~~~~~~~~~~~~~~~---sa--------------~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                       ....+.   ..+.+.++.+++..   +.              .........+..+.+.+..+...
T Consensus       190 ~~~~~~~---~~~~~~~~~~~~~~Ip~~~~~~~a~~~g~~v~~~~~s~~~~~~~~la~~l~~~~~~  252 (260)
T 3q9l_A          190 RGDMLSM---EDVLEILRIKLVGVIPEDQSVLRASNQGEPVILDINADAGKAYADTVERLLGEERP  252 (260)
T ss_dssp             TTSSCCH---HHHHHHHCSEEEEEEECCHHHHHHHHHTCCGGGCTTCHHHHHHHHHHHHHTTCCCC
T ss_pred             cccccCH---HHHHHHhCCceEEecCCChhHHHHHHcCCCeEECCCCHHHHHHHHHHHHHhcCCCc
Confidence             112222   23444556554311   00              11234556677777777665543

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=87.79  E-value=5.5  Score=27.97  Aligned_cols=88  Identities=11%  Similarity=0.108  Sum_probs=51.4

Q ss_pred             EEEEEEeCCCcccchHH-HHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSAM-REQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~-~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~~~~~~  107 (159)
                      +.+.|+|++|......+ .......+|.++++... +..++..+..++..+.......+.++ -+|.|+.+..    ...
T Consensus       119 yD~ViID~~~~~~~~~~~~~~~~~~aD~viiv~~~-~~~s~~~~~~~~~~l~~~~~~~~~~~~gvv~N~~~~~----~~~  193 (289)
T 2afh_E          119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTD----RED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCT----THH
T ss_pred             CCEEEEeCCCccccchhhhhhhhhhCCEEEEEecC-CHHHHHHHHHHHHHHHHHHhcCCCceEEEEEecCCch----hHH
Confidence            45667999985432221 12223578999998875 45666666666665555432234553 4778988632    123


Q ss_pred             HHHHHHHHHcCCcEE
Q psy11289        108 MDAQNVARQLRIPYI  122 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~  122 (159)
                      +....+.+.++.+++
T Consensus       194 ~~~~~l~~~~g~~~l  208 (289)
T 2afh_E          194 ELIIALANKLGTQMI  208 (289)
T ss_dssp             HHHHHHHHHHTSCEE
T ss_pred             HHHHHHHHHcCcccc
Confidence            344556667777654

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=87.60  E-value=0.0076  Score=44.89  Aligned_cols=90  Identities=6%  Similarity=-0.037  Sum_probs=49.5

Q ss_pred             EEEEeCCCcccchH--------HHHHH--hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         32 LDILDTAGQEEFSA--------MREQY--MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        32 ~~l~D~~g~~~~~~--------~~~~~--~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      +.++||||......        ....+  .+..+.++++++....--+..+.+    + ......+.|++++.||.|..+
T Consensus       213 ~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~~~~l~~~~~~~~g~l~~----~-d~l~~~~~~~~~v~nk~d~~~  287 (368)
T 3h2y_A          213 SSLYDTPGIINHHQMAHYVGKQSLKLITPTKEIKPMVFQLNEEQTLFFSGLAR----F-DYVSGGRRAFTCHFSNRLTIH  287 (368)
T ss_dssp             CEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCCCCEEEEECTTEEEEETTTEE----E-EEEESSSEEEEEEECTTSCEE
T ss_pred             eEEEeCCCcCcHHHHHHHhhHHHHHHhccccccCceEEEEcCCCEEEEcceEE----E-EEecCCCceEEEEecCccccc
Confidence            56699999854321        11122  256788888888733211111110    1 111224689999999999865


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      .... ......+.+.+|..+.+.++.
T Consensus       288 ~~~~-~~~~~~~~~~~g~~l~p~~~~  312 (368)
T 3h2y_A          288 RTKL-EKADELYKNHAGDLLSPPTPE  312 (368)
T ss_dssp             EEEH-HHHHHHHHHHBTTTBCSSCHH
T ss_pred             cccH-HHHHHHHHHHhCCccCCCchh
Confidence            4433 223345556677665555543

>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=85.66  E-value=9.8  Score=28.70  Aligned_cols=105  Identities=17%  Similarity=0.185  Sum_probs=58.2

Q ss_pred             EEEEeCCCcccchHHHHHH-----hhcCCEEEEEEECCC--hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC----
Q psy11289         32 LDILDTAGQEEFSAMREQY-----MRSGEGFLLVFSVTD--RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD----  100 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~-----~~~~~~ii~v~d~~~--~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~----  100 (159)
                      +.+||++|..........+     +.+.+.+++ ++...  .... .+.+   .+..    .+.|+++|.||.|+.    
T Consensus       122 ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~~~kqrv-~la~---aL~~----~~~p~~lV~tkpdlllLDE  192 (413)
T 1tq4_A          122 VVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-ISATRFKKNDI-DIAK---AISM----MKKEFYFVRTKVDSDITNE  192 (413)
T ss_dssp             EEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EESSCCCHHHH-HHHH---HHHH----TTCEEEEEECCHHHHHHHH
T ss_pred             eeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eCCCCccHHHH-HHHH---HHHh----cCCCeEEEEecCcccccCc
Confidence            5569999864221111222     334466665 77763  2222 1222   2222    357999999999862    


Q ss_pred             ---CcCCCCHHHH----HHHH----HHcC---CcEEEeCC--CCCCCHHHHHHHHHHHHHh
Q psy11289        101 ---HQRQVSSMDA----QNVA----RQLR---IPYIECSA--KVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       101 ---~~~~~~~~~~----~~~~----~~~~---~~~~~~sa--~~~~~i~~~~~~l~~~~~~  145 (159)
                         .-+....++.    .+++    .+.|   -.++.+|+  .++.|++++.+.+...+.+
T Consensus       193 PtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          193 ADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             HTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             ccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCcc
Confidence               1122233333    2332    1223   25788999  6777899999999876643

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=85.15  E-value=6.8  Score=26.46  Aligned_cols=77  Identities=12%  Similarity=0.073  Sum_probs=48.2

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHH
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM  108 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  108 (159)
                      .+.+.|+|+|+....  .....+..+|.++++... +..++..+......+....   -..+.+|.|+.+.       ..
T Consensus       131 ~yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~~~---~~~~~~v~N~~~~-------~~  197 (254)
T 3kjh_A          131 KKEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEP-NLNSIKTGLNIEKLAGDLG---IKKVRYVINKVRN-------IK  197 (254)
T ss_dssp             CCSEEEEEECTTCTT--CCHHHHTTCSEEEEEECS-SHHHHHHHHHHHHHHHHHT---CSCEEEEEEEECC-------HH
T ss_pred             CCCEEEEeCCCcccH--HHHHHHHHCCEEEEecCC-CHHHHHHHHHHHHHHHHcC---CccEEEEEeCCCC-------hh
Confidence            345667999875432  334556789999999987 4566666666555443332   1357788999883       23


Q ss_pred             HHHHHHHHcC
Q psy11289        109 DAQNVARQLR  118 (159)
Q Consensus       109 ~~~~~~~~~~  118 (159)
                      ....+.+.++
T Consensus       198 ~~~~~~~~~~  207 (254)
T 3kjh_A          198 EEKLIKKHLP  207 (254)
T ss_dssp             HHHHHHHHSC
T ss_pred             HHHHHHHHhc
Confidence            3445555555

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=84.62  E-value=7.4  Score=28.55  Aligned_cols=43  Identities=9%  Similarity=0.075  Sum_probs=28.3

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHH
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      .+.+.|+|+|..-  .......+..+|.+|++...+ ..++..+..
T Consensus       153 ~yD~VIID~pP~l--~~~~~~aL~~aD~viip~~~~-~~s~~~~~~  195 (361)
T 3pg5_A          153 RYDVIFFDVGPSL--GPFNRTVLLGCDAFVTPTATD-LFSFHAFGN  195 (361)
T ss_dssp             CCSEEEEECCSCC--SHHHHHHHTTCSEEEEEECCS-HHHHHHHHH
T ss_pred             CCCEEEEECCCCc--CHHHHHHHHHCCEEEEEecCC-hHHHHHHHH
Confidence            4556779999653  334555667799999999764 555444443

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=83.15  E-value=6.9  Score=27.52  Aligned_cols=83  Identities=13%  Similarity=0.189  Sum_probs=45.9

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh---hcCCCCCcEE-EEEeCCCCCCcCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR---VKDRDEFPML-MVGNKADLDHQRQV  105 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~---~~~~~~~p~i-vv~nK~D~~~~~~~  105 (159)
                      +.+.|+|+|+....  .....+..+|.+|++...+ ..+...+...+..+.+   ... .+.+++ +|.|+.|...  ..
T Consensus       155 yD~IiiD~pp~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~-~~~~~~gvv~n~~~~~~--~~  228 (298)
T 2oze_A          155 YDLIIIDTVPTPSV--YTNNAIVASDYVMIPLQAE-EESTNNIQNYISYLIDLQEQFN-PGLDMIGFVPYLVDTDS--AT  228 (298)
T ss_dssp             CSEEEEEECSSCSH--HHHHHHHHCSEEEEEECGG-GCCHHHHHHHHHHHHHHHHHHC-TTCEEEEEEEEESCTTC--HH
T ss_pred             CCEEEEECCCCccH--HHHHHHHHCCeEEEEecCc-HHHHHHHHHHHHHHHHHHHHhC-CCCeEEEEEEEEECCCc--HH
Confidence            45667999976543  2233444699999998764 3344444444433333   221 356644 7899998532  11


Q ss_pred             CHHHHHHHHHHcC
Q psy11289        106 SSMDAQNVARQLR  118 (159)
Q Consensus       106 ~~~~~~~~~~~~~  118 (159)
                      ..+...++.+.++
T Consensus       229 ~~~~~~~~~~~~~  241 (298)
T 2oze_A          229 IKSNLEELYKQHK  241 (298)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhc
Confidence            1233444555554

>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=82.97  E-value=2.6  Score=32.03  Aligned_cols=42  Identities=7%  Similarity=0.095  Sum_probs=23.2

Q ss_pred             CCCcEEEEEeCCCCCCcCCCCH--HHHHHHHHHcCCcEEEeCCC
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSS--MDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~~~~~~~~~~sa~  127 (159)
                      .++|+|+|.||+|.....++..  +....-....|++++.+|..
T Consensus       175 ~~~~vI~Vi~KtD~Lt~~E~~~l~~~I~~~L~~~gi~I~~is~~  218 (427)
T 2qag_B          175 SKVNIIPIIAKADAISKSELTKFKIKITSELVSNGVQIYQFPTD  218 (427)
T ss_dssp             SCSEEEEEESCGGGSCHHHHHHHHHHHHHHHBTTBCCCCCCC--
T ss_pred             hCCCEEEEEcchhccchHHHHHHHHHHHHHHHHcCCcEEecCCC
Confidence            5789999999999754322110  11111122346777777753

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=80.79  E-value=6.7  Score=27.53  Aligned_cols=65  Identities=18%  Similarity=0.195  Sum_probs=39.7

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLD  100 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~  100 (159)
                      +.+.|+|+|+...... .......+|++++|..... .+...+...+..+.+    .+.+++ +|.|+.|..
T Consensus       192 yD~VIIDtpp~~~~~d-~~~l~~~aD~vilVv~~~~-~~~~~~~~~~~~l~~----~~~~~~GvVlN~~~~~  257 (271)
T 3bfv_A          192 YNFVIIDTPPVNTVTD-AQLFSKFTGNVVYVVNSEN-NNKDEVKKGKELIEA----TGAKLLGVVLNRMPKD  257 (271)
T ss_dssp             CSEEEEECCCTTTCSH-HHHHHHHHCEEEEEEETTS-CCHHHHHHHHHHHHT----TTCEEEEEEEEEECC-
T ss_pred             CCEEEEeCCCCchHHH-HHHHHHHCCEEEEEEeCCC-CcHHHHHHHHHHHHh----CCCCEEEEEEeCCcCC
Confidence            4466799997643221 2344567899999998753 344455444444443    345655 789999853

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=80.59  E-value=3.9  Score=30.50  Aligned_cols=53  Identities=19%  Similarity=0.108  Sum_probs=38.5

Q ss_pred             CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ...|++++.||.|...     .++...+.+  .-.++++|+..+.|++.+.+.+.+.+--
T Consensus       248 ~~~p~i~v~nKid~~~-----~eele~l~~--~~~~~~is~~~e~gLd~Li~~~y~~L~L  300 (376)
T 4a9a_A          248 RYMPAIYVLNKIDSLS-----IEELELLYR--IPNAVPISSGQDWNLDELLQVMWDRLNL  300 (376)
T ss_dssp             EEECEEEEEECGGGSC-----HHHHHHHTT--STTEEECCTTTCTTHHHHHHHHHHHHCC
T ss_pred             hccceEEEEecccccC-----HHHHHHHhc--ccchhhhhhhhcccchhHHHHHHHHcCC
Confidence            4579999999999643     343333222  1248999999999999999988887643

---

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	159
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	3e-31
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-30
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	6e-28
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-27
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-27
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-25
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-25
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	4e-25
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-25
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	6e-25
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	6e-25
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	8e-25
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	1e-24
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-24
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	6e-24
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	9e-24
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-23
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-23
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-22
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-21
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	6e-21
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	3e-20
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	4e-20
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	4e-20
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	6e-20
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	8e-19
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-18
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	1e-17
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-17
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	2e-17
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	6e-17
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-16
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	4e-16
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	5e-16
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-15
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-15
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	4e-15
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-15
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	3e-14
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-13
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	3e-13
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	4e-13
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-12
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-12
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-12
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	1e-11
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	6e-11
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-09
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	7e-09
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-08
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	5e-07
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	3e-05

>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 =  108 bits (271), Expect = 3e-31
 Identities = 48/143 (33%), Positives = 72/143 (50%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            E  F + +  TI   +  +   +D    +L I DTAGQE F  +   Y R   G +LV+
Sbjct: 27  SEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVY 86

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T+  SF+ I  + R I      D   M+ +GNK D++ +RQVS    + +A    I +
Sbjct: 87  DITNEKSFDNIRNWIRNIEEHASADVEKMI-LGNKCDVNDKRQVSKERGEKLALDYGIKF 145

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SAK  INV+ AF  L R + 
Sbjct: 146 METSAKANINVENAFFTLARDIK 168

>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 =  104 bits (261), Expect = 7e-30
 Identities = 47/143 (32%), Positives = 77/143 (53%), Gaps = 3/143 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F   +  TI   +  + V I+    +L I DTAGQE F  +   Y R   G +LV+
Sbjct: 23  VEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVY 82

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +TD  +F  I ++ + +      DE  +L+VGNK+D    R V++   + +A++L IP+
Sbjct: 83  DITDERTFTNIKQWFKTV-NEHANDEAQLLLVGNKSD-METRVVTADQGEALAKELGIPF 140

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           IE SAK   NV++ F  L +++ 
Sbjct: 141 IESSAKNDDNVNEIFFTLAKLIQ 163

>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 = 99.9 bits (248), Expect = 6e-28
 Identities = 43/147 (29%), Positives = 71/147 (48%), Gaps = 2/147 (1%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F      TI  D   K   I+    +L I DTAGQE F ++ + Y RS    +L +
Sbjct: 26  TQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTY 85

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T   SF  + ++ R+I +         ++VGNK DL  +R+VS   A+  +    + Y
Sbjct: 86  DITCEESFRCLPEWLREIEQYASNK-VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYY 144

Query: 122 IECSAKVRINVDQAFHELVRIVLLHTK 148
           +E SAK   NV++ F +L   ++   +
Sbjct: 145 LETSAKESDNVEKLFLDLACRLISEAR 171

>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 = 99.6 bits (247), Expect = 1e-27
 Identities = 44/159 (27%), Positives = 79/159 (49%), Gaps = 11/159 (6%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVI-----------DDIPARLDILDTAGQEEFSAMREQYM 51
            ++ F   +  T+   + ++ V+                 L + DTAGQE F ++   + 
Sbjct: 26  TDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFF 85

Query: 52  RSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ 111
           R   GFLL+F +T + SF  +  +  Q+      +   ++++GNKADL  QR+V+   A+
Sbjct: 86  RDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQAR 145

Query: 112 NVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQC 150
            +A +  IPY E SA    NV++A   L+ +++   +QC
Sbjct: 146 ELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQC 184

>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 = 98.4 bits (244), Expect = 3e-27
 Identities = 46/143 (32%), Positives = 72/143 (50%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F  +   TI  D   K   +D   A+L I DTAGQE F  +   Y R  +G +LV+
Sbjct: 28  TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVY 87

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VT R++F ++  +  ++     R++   ++VGNK D    R+V   +    AR+  + +
Sbjct: 88  DVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKID-KENREVDRNEGLKFARKHSMLF 146

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           IE SAK    V  AF ELV  ++
Sbjct: 147 IEASAKTCDGVQCAFEELVEKII 169

>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 = 93.4 bits (231), Expect = 2e-25
 Identities = 61/139 (43%), Positives = 100/139 (71%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+  YDPTIED Y K+  +D  P+ L+ILDTAG E+F++MR+ Y+++G+GF+LV+S
Sbjct: 24  VTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYS 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + ++ SF++I     QI+RVK  ++ P+++VGNK DL+ +R+VSS + + +A +   P++
Sbjct: 84  LVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFM 143

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK +  VD+ F E+VR
Sbjct: 144 ETSAKSKTMVDELFAEIVR 162

>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 = 93.0 bits (230), Expect = 3e-25
 Identities = 38/143 (26%), Positives = 73/143 (51%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
             + F  +   TI   +  + + +D    +  I DTAGQE +  +   Y R   G LLV+
Sbjct: 25  TRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVY 84

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +    ++E + ++ +++    D +   +++VGNK+DL H R V + +A+  A +  + +
Sbjct: 85  DIAKHLTYENVERWLKELRDHADSN-IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSF 143

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           IE SA    NV++AF  ++  + 
Sbjct: 144 IETSALDSTNVEEAFKNILTEIY 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 = 92.8 bits (229), Expect = 4e-25
 Identities = 95/147 (64%), Positives = 115/147 (78%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFV+DYDPTIEDSYTK C +D IPARLDILDTAGQEEF AMREQYMR+G GFLLVF+
Sbjct: 27  IQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFA 86

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + DR SF E+ K   QILRVKDRD+FP+++VGNKADL+ QRQV   +A        + Y 
Sbjct: 87  INDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF 146

Query: 123 ECSAKVRINVDQAFHELVRIVLLHTKQ 149
           E SAK+R+NVD+AF +LVR V  + +Q
Sbjct: 147 EASAKLRLNVDEAFEQLVRAVRKYQEQ 173

>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 = 92.6 bits (229), Expect = 4e-25
 Identities = 42/139 (30%), Positives = 74/139 (53%), Gaps = 2/139 (1%)

Query: 4   ESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            ++    +  T+   +  + + +D +  +L + DTAGQE F ++   Y R     LL++ 
Sbjct: 29  GAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYD 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT++ SF+ I  +  +I      D   ML +GNK D  H+R V   D + +A++  +P++
Sbjct: 89  VTNKASFDNIQAWLTEIHEYAQHDVALML-LGNKVDSAHERVVKREDGEKLAKEYGLPFM 147

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK  +NVD AF  + +
Sbjct: 148 ETSAKTGLNVDLAFTAIAK 166

>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 = 92.2 bits (228), Expect = 6e-25
 Identities = 42/142 (29%), Positives = 75/142 (52%), Gaps = 2/142 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            E  F+ D   TI   +  + + +     +L I DTAGQE F A+   Y R   G L+V+
Sbjct: 25  TEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVY 84

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R+++  +  +      + + +   ++++GNKADL+ QR V+  +A+  A +  + +
Sbjct: 85  DITRRSTYNHLSSWLTDARNLTNPN-TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLF 143

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK   NV+ AF E  + +
Sbjct: 144 LEASAKTGENVEDAFLEAAKKI 165

>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 = 92.3 bits (228), Expect = 6e-25
 Identities = 72/142 (50%), Positives = 99/142 (69%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   FV DY+PT  DSY K+ V+D    ++DILDTAGQE+++A+R+ Y RSGEGFL VFS
Sbjct: 25  MYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFS 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +T+  SF     F  QILRVK+ +  P L+VGNK+DL+ +RQVS  +A+N A Q  + Y+
Sbjct: 85  ITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYV 144

Query: 123 ECSAKVRINVDQAFHELVRIVL 144
           E SAK R NVD+ F +L+R + 
Sbjct: 145 ETSAKTRANVDKVFFDLMREIR 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 = 92.6 bits (229), Expect = 8e-25
 Identities = 47/148 (31%), Positives = 71/148 (47%), Gaps = 2/148 (1%)

Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  +  DY  TI   +  K   +D    +L I DTAGQE F  +   Y R   G ++V+
Sbjct: 27  SDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVY 86

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VTD+ SF  +  + ++I R         L+VGNK DL  +R V    A+  A   ++P+
Sbjct: 87  DVTDQESFNGVKMWLQEIDR-YATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPF 145

Query: 122 IECSAKVRINVDQAFHELVRIVLLHTKQ 149
           +E SA    NV+ AF  + R +     Q
Sbjct: 146 LETSALDSTNVEDAFLTMARQIKESMSQ 173

>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 = 91.3 bits (225), Expect = 1e-24
 Identities = 115/142 (80%), Positives = 130/142 (91%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+SYFVTDYDPTIEDSYTKQCVIDD  ARLDILDTAGQEEF AMREQYMR+GEGFLLVFS
Sbjct: 26  IQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFS 85

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTDR SFEEIYKF RQILRVKDRDEFPM+++GNKADLDHQRQV+  + Q +ARQL++ Y+
Sbjct: 86  VTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYM 145

Query: 123 ECSAKVRINVDQAFHELVRIVL 144
           E SAK+R+NVDQAFHELVR++ 
Sbjct: 146 EASAKIRMNVDQAFHELVRVIR 167

>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 = 90.0 bits (222), Expect = 3e-24
 Identities = 84/144 (58%), Positives = 106/144 (73%), Gaps = 1/144 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           I+++FV +YDPTIEDSY KQ VID     LDILDTAGQEE+SAMR+QYMR+GEGFL VF+
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           + +  SFE+I+++  QI RVKD D+ PM++VGNK D    R V S  AQ++AR   IPYI
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCD-LAARTVESRQAQDLARSYGIPYI 142

Query: 123 ECSAKVRINVDQAFHELVRIVLLH 146
           E SAK R  V+ AF+ LVR +  H
Sbjct: 143 ETSAKTRQGVEDAFYTLVREIRQH 166

>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 = 89.6 bits (221), Expect = 6e-24
 Identities = 46/142 (32%), Positives = 74/142 (52%), Gaps = 2/142 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI   +  + +  +D   RL + DTAGQE F ++   Y+R     ++V+
Sbjct: 21  MYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY 80

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T+ NSF++  K+   +   +  D   ML VGNK DL  +RQVS  + +  A++L + +
Sbjct: 81  DITNVNSFQQTTKWIDDVRTERGSDVIIML-VGNKTDLADKRQVSIEEGERKAKELNVMF 139

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           IE SAK   NV Q F  +   +
Sbjct: 140 IETSAKAGYNVKQLFRRVAAAL 161

>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 = 89.2 bits (220), Expect = 9e-24
 Identities = 46/143 (32%), Positives = 72/143 (50%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F   +  T+   +  K    +D   +L I DTAGQE +  +   Y R   GF+L++
Sbjct: 26  ADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMY 85

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T+  SF  +  +  QI +    D   +L+VGNK D++ +R VSS   + +A  L   +
Sbjct: 86  DITNEESFNAVQDWSTQI-KTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEF 144

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
            E SAK  INV Q F  LV ++ 
Sbjct: 145 FEASAKDNINVKQTFERLVDVIC 167

>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 = 88.8 bits (219), Expect = 2e-23
 Identities = 42/143 (29%), Positives = 72/143 (50%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDI-PARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           IE  F  D + TI   +  + +       +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 26  IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY 85

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R ++  +  +      +       +++ GNK DLD  R+V+ ++A   A++  + +
Sbjct: 86  DITSRETYNALTNWLTDARMLAS-QNIVIILCGNKKDLDADREVTFLEASRFAQENELMF 144

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SA    NV++AF +  R +L
Sbjct: 145 LETSALTGENVEEAFVQCARKIL 167

>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 = 88.4 bits (218), Expect = 2e-23
 Identities = 43/148 (29%), Positives = 73/148 (49%), Gaps = 2/148 (1%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F   +D TI  +   +   ID    +L I DTAGQE F ++   Y R   G LLV+
Sbjct: 24  TDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVY 83

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T R +F  +  +     R        ++++GNK+DL+ +R V   + +  AR+  + +
Sbjct: 84  DITRRETFNHLTSWLEDA-RQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIF 142

Query: 122 IECSAKVRINVDQAFHELVRIVLLHTKQ 149
           +E SAK   NV++AF    + +    +Q
Sbjct: 143 METSAKTACNVEEAFINTAKEIYRKIQQ 170

>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 = 85.5 bits (210), Expect = 2e-22
 Identities = 85/143 (59%), Positives = 109/143 (76%), Gaps = 1/143 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  FV DYDPTIEDSY K   ID+  A LD+LDTAGQEEFSAMREQYMR+G+GFL+V+S
Sbjct: 25  FQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYS 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VTD+ SFE + +FH+ ILRVKDR+ FPM++V NK DL H R+V+    + +A +  IPYI
Sbjct: 85  VTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYI 144

Query: 123 ECSAKVR-INVDQAFHELVRIVL 144
           E SAK   +NVD+ FH+LVR++ 
Sbjct: 145 ETSAKDPPLNVDKTFHDLVRVIR 167

>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 = 83.9 bits (206), Expect = 1e-21
 Identities = 40/155 (25%), Positives = 69/155 (44%), Gaps = 14/155 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             + F  +Y PT+ D+Y+   ++D  P  L + DTAGQE++  +R       +  L+ FS
Sbjct: 26  TTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFS 85

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS------------MDA 110
           +    SFE +       +R       P+++VG K DL   +                   
Sbjct: 86  LVSPASFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQG 144

Query: 111 QNVARQL-RIPYIECSAKVRINVDQAFHELVRIVL 144
             +A+++  + Y+ECSA  +  +   F E +R VL
Sbjct: 145 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 179

>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 = 81.9 bits (201), Expect = 6e-21
 Identities = 40/143 (27%), Positives = 76/143 (53%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSYT-KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            E+ F   +  T+  S+  K+  I      L I DTAGQE F A+   Y R   G +LV+
Sbjct: 24  CENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVY 83

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +TD +SF+++  + +++ ++   +    ++ GNK DL+ +R VS  +A++ A  +   +
Sbjct: 84  DITDEDSFQKVKNWVKELRKMLGNEICLCIV-GNKIDLEKERHVSIQEAESYAESVGAKH 142

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
              SAK    +++ F +L + ++
Sbjct: 143 YHTSAKQNKGIEELFLDLCKRMI 165

>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 = 80.0 bits (196), Expect = 3e-20
 Identities = 69/142 (48%), Positives = 101/142 (71%), Gaps = 1/142 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  FV  YDPTIEDSY KQ  +D     L+ILDTAG E+F+AMR+ YM++G+GF LV+S
Sbjct: 24  VQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPY 121
           +T +++F ++     QILRVKD ++ PM++VGNK DL+ +R V     QN+ARQ     +
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF 143

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK +INV++ F++LVR +
Sbjct: 144 LESSAKSKINVNEIFYDLVRQI 165

>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 = 80.0 bits (196), Expect = 4e-20
 Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 14/155 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
               F  +Y PT+ D Y     +      L + DTAGQE++  +R       + FL+ FS
Sbjct: 30  ANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFS 89

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ------------VSSMDA 110
           V +  SF+ + +     L+ +     P L++G + DL    +            +     
Sbjct: 90  VVNPASFQNVKEEWVPELK-EYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQG 148

Query: 111 QNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           Q +A+++    Y+ECSA  +  +   F E +  +L
Sbjct: 149 QKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 183

>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 = 79.6 bits (195), Expect = 4e-20
 Identities = 46/146 (31%), Positives = 70/146 (47%), Gaps = 4/146 (2%)

Query: 3   IESYFVTDYDPTIEDSYTK-QCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           + + F T    TI   +      +D     + I DTAGQE F ++R  + R  +  LL F
Sbjct: 27  VTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTF 86

Query: 62  SVTDRNSFEEIYKFHRQILR---VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR 118
           SV D  SF+ +  + ++ +    VK+ + FP +++GNK D+  ++  +            
Sbjct: 87  SVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCRDNGD 146

Query: 119 IPYIECSAKVRINVDQAFHELVRIVL 144
            PY E SAK   NV  AF E VR VL
Sbjct: 147 YPYFETSAKDATNVAAAFEEAVRRVL 172

>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 = 79.7 bits (195), Expect = 6e-20
 Identities = 43/164 (26%), Positives = 72/164 (43%), Gaps = 14/164 (8%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
             + F ++Y PT+ D+Y    +I   P  L + DTAGQE++  +R       + FL+ FS
Sbjct: 24  TTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFS 83

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM------------DA 110
           V   +SFE + +     +      + P L+VG + DL                      A
Sbjct: 84  VVSPSSFENVKEKWVPEIT-HHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETA 142

Query: 111 QNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTKQCKNS 153
           + +AR L+ + Y+ECSA  +  +   F E +   L   +  K+ 
Sbjct: 143 EKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPKKSR 186

>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 = 76.2 bits (186), Expect = 8e-19
 Identities = 40/143 (27%), Positives = 75/143 (52%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCV-IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           ++  F    + TI  ++  Q V +DD   + +I DTAGQE + ++   Y R  +  ++V+
Sbjct: 27  VKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVY 86

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T+  SF    K   + L+ +      + + GNKADL ++R V   +AQ+ A    + +
Sbjct: 87  DITNEESFARA-KNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLF 145

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
           +E SAK  +NV++ F  + + + 
Sbjct: 146 METSAKTSMNVNEIFMAIAKKLP 168

>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 = 75.8 bits (185), Expect = 1e-18
 Identities = 51/142 (35%), Positives = 80/142 (56%), Gaps = 1/142 (0%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           ++  F   Y PT+ED+Y +    D     L I DT G  +F AM+   +  G  F+LV+S
Sbjct: 23  VKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYS 82

Query: 63  VTDRNSFEEIYKFHRQILRVK-DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           +T R S EE+   + QI  +K D +  P+++VGNK D    R+V S +A+ +AR  +  +
Sbjct: 83  ITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAF 142

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK+  NV + F EL+ + 
Sbjct: 143 METSAKLNHNVKELFQELLNLE 164

>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 = 73.1 bits (178), Expect = 1e-17
 Identities = 39/142 (27%), Positives = 64/142 (45%), Gaps = 5/142 (3%)

Query: 3   IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEF-SAMREQYMRSGEGFLLV 60
               F    + TI   +  +   ID    ++ + DTAGQE F  +M + Y R+    + V
Sbjct: 23  CAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFV 82

Query: 61  FSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIP 120
           + +T+  SF  +  +  +  +    ++ P ++VGNK DL    QV +  AQ  A    +P
Sbjct: 83  YDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMP 142

Query: 121 YIECSAKVR---INVDQAFHEL 139
             E SAK      +V+  F  L
Sbjct: 143 LFETSAKNPNDNDHVEAIFMTL 164

>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 = 73.1 bits (178), Expect = 2e-17
 Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 14/155 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  F   Y PT+ ++Y     +D     L + DTAG E++  +R       +  L+ FS
Sbjct: 23  SKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFS 82

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM------------DA 110
           +   +S E I +     ++       P+++VGNK DL +                   + 
Sbjct: 83  IDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEG 141

Query: 111 QNVARQLR-IPYIECSAKVRINVDQAFHELVRIVL 144
           +++A ++    Y+ECSAK +  V + F    R  L
Sbjct: 142 RDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL 176

>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 = 73.2 bits (178), Expect = 2e-17
 Identities = 49/149 (32%), Positives = 76/149 (51%), Gaps = 7/149 (4%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVI--DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLV 60
           +   +   Y  TI   +  + V    D  A + + DTAGQE F ++   + R  +  +LV
Sbjct: 23  VNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLV 82

Query: 61  FSVTDRNSFEEIYKFHRQILR---VKDRDEFPMLMVGNKADLDHQRQVSS-MDAQNVARQ 116
           + VT+ +SFE I  +  + L    V   + FP +++GNK D +  +++ S   AQ +A+ 
Sbjct: 83  YDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKS 142

Query: 117 L-RIPYIECSAKVRINVDQAFHELVRIVL 144
           L  IP    SAK  INVD AF E+ R  L
Sbjct: 143 LGDIPLFLTSAKNAINVDTAFEEIARSAL 171

>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 = 71.6 bits (174), Expect = 6e-17
 Identities = 56/143 (39%), Positives = 84/143 (58%), Gaps = 2/143 (1%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +   F+ +YDPT+E +Y  Q  IDD    ++I      +E +  RE +MR GEGF+LV+ 
Sbjct: 23  LTKRFIWEYDPTLESTYRHQATIDDEVVSMEI-LDTAGQEDTIQREGHMRWGEGFVLVYD 81

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           +TDR SFEE+      +  +K      +++VGNKADLDH RQVS+ + + +A +L   + 
Sbjct: 82  ITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFY 141

Query: 123 ECSAKV-RINVDQAFHELVRIVL 144
           ECSA     N+ + F+EL R V 
Sbjct: 142 ECSACTGEGNITEIFYELCREVR 164

>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 = 70.8 bits (172), Expect = 1e-16
 Identities = 42/142 (29%), Positives = 68/142 (47%), Gaps = 2/142 (1%)

Query: 3   IESYFVTDYDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +E  F  + +PTI     TK     +   +  I DTAG E F A+   Y R     ++V+
Sbjct: 25  VEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVY 84

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            +T   +F  + K   + LR        + + GNK DL   R+V   DA++ A  +   +
Sbjct: 85  DITKEETFSTL-KNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIF 143

Query: 122 IECSAKVRINVDQAFHELVRIV 143
           +E SAK  IN+++ F E+ R +
Sbjct: 144 VETSAKNAININELFIEISRRI 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 = 69.3 bits (168), Expect = 4e-16
 Identities = 39/147 (26%), Positives = 74/147 (50%), Gaps = 5/147 (3%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDD-IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           + + F  + +PTI  ++  Q V  +    + +I DTAGQE F+++   Y R+ +  L+V+
Sbjct: 24  VSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVY 83

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH---QRQVSSMDAQNVARQLR 118
            VT   SF    +   + L  +   +  + +VGNK D+     +R+V+  + + +A +  
Sbjct: 84  DVTKPQSFI-KARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKG 142

Query: 119 IPYIECSAKVRINVDQAFHELVRIVLL 145
           + + E SAK   NV+  F  +   + L
Sbjct: 143 LLFFETSAKTGENVNDVFLGIGEKIPL 169

>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 = 69.3 bits (168), Expect = 5e-16
 Identities = 46/151 (30%), Positives = 75/151 (49%), Gaps = 4/151 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQC-VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  TI   +  +  ++DD    + I DTAGQE F ++   + R  +  +LVF
Sbjct: 23  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF 82

Query: 62  SVTDRNSFEEIYKFHRQILRVK---DRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR 118
            VT  N+F+ +  +  + L      D + FP +++GNK DL++++  +         +  
Sbjct: 83  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNN 142

Query: 119 IPYIECSAKVRINVDQAFHELVRIVLLHTKQ 149
           IPY E SAK  INV+QAF  + R  L    +
Sbjct: 143 IPYFETSAKEAINVEQAFQTIARNALKQETE 173

>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 = 68.4 bits (166), Expect = 1e-15
 Identities = 20/142 (14%), Positives = 45/142 (31%), Gaps = 3/142 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +    +     TI         +     + ++ D  GQ++   +   Y    +G + V  
Sbjct: 29  LYKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVD 88

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR---QVSSMDAQNVARQLRI 119
             DR+  +E  +   +I+  ++  +  +L+  NK DL       ++         R    
Sbjct: 89  CADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNW 148

Query: 120 PYIECSAKVRINVDQAFHELVR 141
                 A     + +    L  
Sbjct: 149 YVQPSCATSGDGLYEGLTWLTS 170

>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 = 67.4 bits (163), Expect = 2e-15
 Identities = 39/156 (25%), Positives = 64/156 (41%), Gaps = 15/156 (9%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
            +  F  +Y PT+ ++YT    ID     L + DT+G   +  +R       +  L+ F 
Sbjct: 23  AKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFD 82

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL------------DHQRQVSSMDA 110
           ++   + + + K  +  ++        ML+VG K+DL              Q  VS    
Sbjct: 83  ISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQG 141

Query: 111 QNVARQLRI-PYIECSAKVRIN-VDQAFHELVRIVL 144
            N+A+Q+    YIECSA    N V   FH      +
Sbjct: 142 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 177

>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 = 66.7 bits (161), Expect = 4e-15
 Identities = 49/143 (34%), Positives = 75/143 (52%), Gaps = 3/143 (2%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +  F  DY  TI  D   +Q  ++D   RL + DTAGQEEF A+ + Y R  +  +LVF
Sbjct: 23  CKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVF 82

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
           S TDR SFE I  +  +   V +  + P  +V NK DL     + + +A+ +A++L++ +
Sbjct: 83  STTDRESFEAISSWREK--VVAEVGDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRF 140

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
              S K  +NV + F  L    L
Sbjct: 141 YRTSVKEDLNVSEVFKYLAEKHL 163

>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 = 65.8 bits (159), Expect = 6e-15
 Identities = 18/135 (13%), Positives = 44/135 (32%), Gaps = 3/135 (2%)

Query: 10  DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           +   TI         ++       + D  GQ++   +   Y ++ +G + V    DR   
Sbjct: 24  EIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERV 83

Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNK---ADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            E  +   ++L   +  +  +L+  NK    +  +  +++     +  R          A
Sbjct: 84  NEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCA 143

Query: 127 KVRINVDQAFHELVR 141
                + +    L  
Sbjct: 144 TSGDGLYEGLDWLSN 158

>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 = 64.4 bits (155), Expect = 3e-14
 Identities = 47/139 (33%), Positives = 78/139 (56%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +E  FV  YDPTIE+++TK   ++     L ++DTAGQ+E+S   + Y     G++LV+S
Sbjct: 25  VEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYS 84

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYI 122
           VT   SFE I   H ++L +  + + P+++VGNK DL  +R +S  + + +A      ++
Sbjct: 85  VTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFL 144

Query: 123 ECSAKVRINVDQAFHELVR 141
           E SAK        F  ++ 
Sbjct: 145 ESSAKENQTAVDVFRRIIL 163

>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 = 61.9 bits (149), Expect = 3e-13
 Identities = 23/142 (16%), Positives = 48/142 (33%), Gaps = 3/142 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +  + + +   T     +    I     R  + D  GQE   +    Y  + E  ++V  
Sbjct: 32  LYQFSMNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVD 91

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ---RQVSSMDAQNVARQLRI 119
            TDR       +   ++L  +D  +  +L+  NK D+       ++S        +  + 
Sbjct: 92  STDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQW 151

Query: 120 PYIECSAKVRINVDQAFHELVR 141
               C A     + Q    ++ 
Sbjct: 152 HIQACCALTGEGLCQGLEWMMS 173

>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 = 61.7 bits (148), Expect = 3e-13
 Identities = 41/139 (29%), Positives = 69/139 (49%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
                      +Y +  V+D   A L + D   Q+    +    M  G+ +++V+SVTD+
Sbjct: 25  EDGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDK 84

Query: 67  NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSA 126
            SFE+  +   Q+ R +  D+ P+++VGNK+DL   R+VS  + +  A      +IE SA
Sbjct: 85  GSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSA 144

Query: 127 KVRINVDQAFHELVRIVLL 145
            +  NV   F  +VR + L
Sbjct: 145 ALHHNVQALFEGVVRQIRL 163

>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 = 61.5 bits (148), Expect = 4e-13
 Identities = 20/144 (13%), Positives = 45/144 (31%), Gaps = 3/144 (2%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
           +    + +   T          +     +L++ D  GQ         Y       + V  
Sbjct: 34  LYRLQIGEVVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVD 93

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ---RQVSSMDAQNVARQLRI 119
            TD++      K    +L+ ++  +  +L+  NK D        +VS        +    
Sbjct: 94  STDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSW 153

Query: 120 PYIECSAKVRINVDQAFHELVRIV 143
             +  SA     + +    L+ ++
Sbjct: 154 SIVASSAIKGEGITEGLDWLIDVI 177

>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 = 59.0 bits (141), Expect = 3e-12
 Identities = 42/147 (28%), Positives = 75/147 (51%), Gaps = 1/147 (0%)

Query: 1   MKIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGE-GFLL 59
             +     +D +   ED+Y +  ++D   A + +LD    +  +     +       +L+
Sbjct: 24  AGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLI 83

Query: 60  VFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRI 119
           V+S+TDR SFE+  +   Q+ R +  ++ P+++VGNK+DL   R+VS  + +  A     
Sbjct: 84  VYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDC 143

Query: 120 PYIECSAKVRINVDQAFHELVRIVLLH 146
            +IE SA V+ NV + F  +VR V L 
Sbjct: 144 KFIETSAAVQHNVKELFEGIVRQVRLR 170

>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 = 58.4 bits (140), Expect = 5e-12
 Identities = 20/99 (20%), Positives = 34/99 (34%), Gaps = 3/99 (3%)

Query: 46  MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQV 105
               Y  + +  + V    DR  FEE  +   ++L  +     P+L+  NK DL      
Sbjct: 76  YWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPA 135

Query: 106 SSMD---AQNVARQLRIPYIECSAKVRINVDQAFHELVR 141
           S +      +  R        CSA     V    + + +
Sbjct: 136 SEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCK 174

>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 = 58.1 bits (139), Expect = 5e-12
 Identities = 26/143 (18%), Positives = 49/143 (34%), Gaps = 6/143 (4%)

Query: 2   KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           K     V    PT+  +            +L+I D  GQ+   +    Y  S +G + V 
Sbjct: 21  KFNGEDVDTISPTLGFNIKTLEHRGF---KLNIWDVGGQKSLRSYWRNYFESTDGLIWVV 77

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD---AQNVARQLR 118
              DR   ++  +  + +L  +      +L+  NK DL      +++      +  R   
Sbjct: 78  DSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHH 137

Query: 119 IPYIECSAKVRINVDQAFHELVR 141
                CSA    ++      L+ 
Sbjct: 138 WRIQGCSAVTGEDLLPGIDWLLD 160

>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 = 57.7 bits (138), Expect = 1e-11
 Identities = 35/143 (24%), Positives = 72/143 (50%), Gaps = 5/143 (3%)

Query: 3   IESYFVTDYDPTI-EDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
           +   F   Y  T+  + +      +  P + ++ DTAGQE+F  +R+ Y    +  +++F
Sbjct: 24  LTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMF 83

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPY 121
            VT R +++ +  +HR ++RV +    P+++ GNK D+  ++  +        R+  + Y
Sbjct: 84  DVTSRVTYKNVPNWHRDLVRVCE--NIPIVLCGNKVDIKDRKVKAKSIVF--HRKKNLQY 139

Query: 122 IECSAKVRINVDQAFHELVRIVL 144
            + SAK   N ++ F  L R ++
Sbjct: 140 YDISAKSNYNFEKPFLWLARKLI 162

>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 = 55.8 bits (133), Expect = 6e-11
 Identities = 32/145 (22%), Positives = 62/145 (42%), Gaps = 10/145 (6%)

Query: 10  DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
             + T  + Y K+ ++D     + I     +EE  A   ++    +  + VFS+ D NSF
Sbjct: 32  VLEKTESEQYKKEMLVDGQTHLVLI-----REEAGAPDAKFSGWADAVIFVFSLEDENSF 86

Query: 70  EEIYKFHRQILRVKDRDEFPMLM----VGNKADLDHQRQVSSMDAQNVARQL-RIPYIEC 124
           + + + H Q+  ++      + +      ++      R V    A+ +   + R  Y E 
Sbjct: 87  QAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYET 146

Query: 125 SAKVRINVDQAFHELVRIVLLHTKQ 149
            A   +NVD+ F E+ + V+   KQ
Sbjct: 147 CATYGLNVDRVFQEVAQKVVTLRKQ 171

>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 = 51.6 bits (122), Expect = 2e-09
 Identities = 29/142 (20%), Positives = 51/142 (35%), Gaps = 6/142 (4%)

Query: 3   IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFS 62
               F  D  PT+         I      + + D  GQ  F +M E+Y R     + +  
Sbjct: 23  ASGQFNEDMIPTV---GFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVD 79

Query: 63  VTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADL---DHQRQVSSMDAQNVARQLRI 119
             D+   E        +L        P+L++GNK DL     ++++      +  +   I
Sbjct: 80  AADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREI 139

Query: 120 PYIECSAKVRINVDQAFHELVR 141
                S K + N+D     L++
Sbjct: 140 CCYSISCKEKDNIDITLQWLIQ 161

>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 = 50.1 bits (118), Expect = 7e-09
 Identities = 20/137 (14%), Positives = 43/137 (31%), Gaps = 3/137 (2%)

Query: 10  DYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF 69
           +   TI         +     +  + D  G          Y  + +  + V    DR+  
Sbjct: 29  EVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRI 88

Query: 70  EEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMD---AQNVARQLRIPYIECSA 126
                    +L  ++  +  +++  NK D++     S M         +  +    + SA
Sbjct: 89  GISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSA 148

Query: 127 KVRINVDQAFHELVRIV 143
                +D+A   LV  +
Sbjct: 149 TKGTGLDEAMEWLVETL 165

>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 = 49.3 bits (116), Expect = 1e-08
 Identities = 22/150 (14%), Positives = 53/150 (35%), Gaps = 13/150 (8%)

Query: 2   KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVF 61
            +++  +    PT   +  +  + +    +    D  G  +   + + Y     G + + 
Sbjct: 19  MLKNDRLATLQPTWHPTSEELAIGNI---KFTTFDLGGHIQARRLWKDYFPEVNGIVFLV 75

Query: 62  SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM----------DAQ 111
              D   F+E       +  + +  + P +++GNK D  +    + +           +Q
Sbjct: 76  DAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQ 135

Query: 112 NVARQLRIPYIECSAKVRINVDQAFHELVR 141
            +  Q  +    CS  +R    +AF  L +
Sbjct: 136 RIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 165

>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 = 45.1 bits (105), Expect = 5e-07
 Identities = 16/150 (10%), Positives = 40/150 (26%), Gaps = 15/150 (10%)

Query: 9   TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS 68
                 +   +     +          D  G  +   + + Y+ +  G + +    D   
Sbjct: 36  DRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHER 95

Query: 69  FEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSM---------------DAQNV 113
             E  +    ++  +     P+L++GNK D         +                +   
Sbjct: 96  LLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKE 155

Query: 114 ARQLRIPYIECSAKVRINVDQAFHELVRIV 143
                +    CS   R    + F  + + +
Sbjct: 156 LNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>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 = 39.9 bits (92), Expect = 3e-05
 Identities = 20/174 (11%), Positives = 38/174 (21%), Gaps = 39/174 (22%)

Query: 7   FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDR 66
               ++         +           + D  GQ                 +   +++D 
Sbjct: 22  MKIIHEAGT---GIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDY 78

Query: 67  ----------NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS--------- 107
                     N   E  K    I   K   +  +++  NK DL  ++   S         
Sbjct: 79  DLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEY 138

Query: 108 -----------------MDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL 144
                             D         I      A    NV   F  +  +++
Sbjct: 139 AGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVII 192

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	159
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.98
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.98
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.98
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.98
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.97
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.97
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.97
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.97
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.97
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.97
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.96
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.96
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.96
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.96
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.96
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.95
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.95
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.92
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.91
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.9
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.9
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.89
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.85
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.75
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.74
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.73
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.72
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.71
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.7
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.7
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.63
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.62
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.61
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.59
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.55
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.51
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.51
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.48
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.45
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.42
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.41
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.39
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.38
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.33
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.24
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.09
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.08
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.96
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.96
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.92
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.91
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.84
d1nrjb_	209	Signal recognition particle receptor beta-subunit	98.81
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.75
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.71
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.53
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.51
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.45
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.29
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.22
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.1
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	97.98
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.82
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	97.78
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.5
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	96.4
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.2
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	95.9
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	95.1
d1okkd2	207	GTPase domain of the signal recognition particle r	93.03
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	91.7
d1j8yf2	211	GTPase domain of the signal sequence recognition p	91.64
d2qy9a2	211	GTPase domain of the signal recognition particle r	91.46
d1ls1a2	207	GTPase domain of the signal sequence recognition p	89.06
d1vmaa2	213	GTPase domain of the signal recognition particle r	88.81
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	88.76
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	88.19
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	88.03
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	87.38
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	85.14

>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=7.6e-34  Score=190.12  Aligned_cols=144  Identities=50%  Similarity=0.811  Sum_probs=132.5

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.++|.||+++.+.+.+.+++..+.+++||++|++++..++..+++++|++++|||+++++|++.+..|++.+.+
T Consensus        24 ~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~  103 (168)
T d1u8za_          24 FMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILR  103 (168)
T ss_dssp             HHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCcccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHH
Confidence            35788999999999998888889999999999999999999999999999999999999999999999999999999998


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .....++|+++||||+|+.+.+.++.+++..+++.+++++++|||++|.||+++|+++++.+..
T Consensus       104 ~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         104 VKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            8766789999999999998888999999999999999999999999999999999999998754

>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=1.6e-33  Score=188.69  Aligned_cols=145  Identities=59%  Similarity=0.921  Sum_probs=135.2

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+.+.||+++.+.+.+.+++..+.+++||++|++++..+++.+++++|++++|||+++++||+.+..|+..+.+
T Consensus        24 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~  103 (169)
T d1x1ra1          24 FFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILR  103 (169)
T ss_dssp             HHHSSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HHhCCCCcccCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEecccccchhhhccchhhHHHHh
Confidence            45778999999999988888889999999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCC-CHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI-NVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~l~~~~~~~  146 (159)
                      .....+.|++++|||+|+.+.+.++.+++.++|+.+++++++|||+++. ||+++|+.+++++.++
T Consensus       104 ~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         104 VKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             HHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             hccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHhC
Confidence            7666789999999999999988999999999999999999999999986 9999999999988763

>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=2.2e-33  Score=188.67  Aligned_cols=147  Identities=64%  Similarity=1.011  Sum_probs=136.7

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+++.||..+.+.+.+.+++..+.+++||++|++++..++..+++++|++++|||+++++||+.+..|+..+.+
T Consensus        26 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~  105 (173)
T d2fn4a1          26 FIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILR  105 (173)
T ss_dssp             HHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeecccccccccchhhhhhHHHHH
Confidence            35788999999999888888999999999999999999999999999999999999999999999999999999999888


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .....+.|+++||||+|+.+.+.++.+++..+++.+++++++|||++|.||+++|+.+++.+.+.+.
T Consensus       106 ~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         106 VKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             HHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             HhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            7666788999999999998888889999999999999999999999999999999999999877653

>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=2.5e-33  Score=187.56  Aligned_cols=141  Identities=29%  Similarity=0.444  Sum_probs=116.6

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDE   87 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~   87 (159)
                      ...+.||.++.+.+.+.+++..+.+++||++|++++..++..+++++|++|+|||+++++|++.+..|+..+........
T Consensus        26 ~~~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~  105 (168)
T d2gjsa1          26 DGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDD  105 (168)
T ss_dssp             --------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--C
T ss_pred             cCCcCCeeeeeecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhccccccc
Confidence            34567777888888899999999999999999999999999999999999999999999999999999999988766667


Q ss_pred             CcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         88 FPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        88 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      +|+++||||+|+.+.+.++..++.++++.+++++++|||++|.||+++|+++++.+..++.
T Consensus       106 ~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         106 VPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRD  166 (168)
T ss_dssp             CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHhh
Confidence            8999999999999888999999999999999999999999999999999999998876543

>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=1.4e-33  Score=188.48  Aligned_cols=143  Identities=33%  Similarity=0.556  Sum_probs=134.0

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+.+.||++..+.+.+.+++..+.+++||++|.+++..++..+++++|++++|||+++++||+.+..|+..+.+
T Consensus        24 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~  103 (167)
T d1xtqa1          24 FVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLD  103 (167)
T ss_dssp             HHHSCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCcccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhh
Confidence            35788999999999988888999999999999999999999988889999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .....++|+++||||+|+...+.++.+++.++++++++++++|||++|.||+++|+.++..+.
T Consensus       104 ~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         104 MVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             cccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            776678999999999999888899999999999999999999999999999999999998875

>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=1.1e-32  Score=184.45  Aligned_cols=145  Identities=43%  Similarity=0.682  Sum_probs=130.8

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.++|.||++..+...+..++..+.+++||++|++.+. ....++++++++++|||+++++|+..+..|+..+..
T Consensus        22 ~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~  100 (168)
T d2atva1          22 FLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDE  100 (168)
T ss_dssp             HHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HHhCCCCCccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeecccCCccchhhhhhhcccccc
Confidence            4578899999999999888888889999999999999999875 467789999999999999999999999988777666


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCC-CHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRI-NVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~~~~~l~~~~~~~~  147 (159)
                      .....+.|+++||||+|+.+.+.++.+++.++|+++++++++|||++|. ||+++|.++++.+.+++
T Consensus       101 ~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~~~r  167 (168)
T d2atva1         101 IKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRR  167 (168)
T ss_dssp             HHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             cccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHHHhc
Confidence            5555689999999999998888999999999999999999999999998 59999999999987654

>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=2.7e-32  Score=182.87  Aligned_cols=146  Identities=79%  Similarity=1.211  Sum_probs=132.1

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+++.||.++.+...+.+++..+.+++||++|.+.+...++.+++++|++++|||+++++|++.+..|+..+.+
T Consensus        25 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~  104 (171)
T d2erya1          25 FIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILR  104 (171)
T ss_dssp             HHHSCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HHhCCCCcccCcccccceeeeeeecccccccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHh
Confidence            35688999999999998889999999999999999999999999999999999999999999999999999999999888


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .......|+++||||+|+.+.+.++.+++.++++++++++++|||++|.||+++|++|++.+.+.+
T Consensus       105 ~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~~  170 (171)
T d2erya1         105 VKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKFQ  170 (171)
T ss_dssp             HHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHHhh
Confidence            776678999999999999888899999999999999999999999999999999999999986543

>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=5.7e-33  Score=186.12  Aligned_cols=145  Identities=34%  Similarity=0.572  Sum_probs=131.7

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.+++.||+++.+.....+++..+.+++||++|++++...+..+++++|++++|||+++++|++.+..|+..+.+
T Consensus        22 ~~~~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~  101 (171)
T d2erxa1          22 FVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICE  101 (171)
T ss_dssp             HHTCCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHH
T ss_pred             HHhCCCCCccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEeecccccchhcccchhhhhhh
Confidence            35688999999999998888889999999999999999999999999999999999999999999999999999988876


Q ss_pred             hcC-CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKD-RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ... ..++|+++||||+|+.+.+.++.+++.++++.+++++++|||++|.||+++|+.|++.+.++
T Consensus       102 ~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~~~~  167 (171)
T d2erxa1         102 IKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRR  167 (171)
T ss_dssp             HHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCCSS
T ss_pred             hhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            543 35789999999999988889999999999999999999999999999999999999866443

>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=3.3e-32  Score=181.83  Aligned_cols=143  Identities=48%  Similarity=0.820  Sum_probs=132.7

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++.+.|.++|.||+++.+...+.+++..+.+++||++|++.+..+++.+++++|++++|||+++++||+.+..|+..+.+
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~  102 (167)
T d1c1ya_          23 FVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILR  102 (167)
T ss_dssp             HHHCCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HHcCCCCCccCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhhHhHHHHHHHHHH
Confidence            45788999999999988888888899999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc-CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL-RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+++|+++||||+|+.....++.+++..+++++ ++++++|||++|.||+++|+++++++.
T Consensus       103 ~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         103 VKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             hcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            766678999999999999988899999999999885 689999999999999999999999874

>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=1.9e-32  Score=182.45  Aligned_cols=141  Identities=33%  Similarity=0.533  Sum_probs=131.1

Q ss_pred             ccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+++.||++.. +......++..+.+++||++|++++..+++.++++++++++|||+++++|++.+..|++.+.+
T Consensus        23 ~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~  102 (164)
T d1z2aa1          23 CKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVA  102 (164)
T ss_dssp             HHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccchhhhhhcccccccccc
Confidence            5678999999999954 588888899999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ..  .++|+++||||+|+.+++.++.+++.++++++++++++|||++|.||+++|++|++.+++
T Consensus       103 ~~--~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1         103 EV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             HH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             cC--CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHhC
Confidence            76  578999999999999888999999999999999999999999999999999999998864

>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=6.6e-32  Score=180.31  Aligned_cols=143  Identities=43%  Similarity=0.780  Sum_probs=133.8

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+++.||+++.+.....+++..+.+++||++|++.+..++..++++++++++|||+++++++..+..|+..+..
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~  102 (167)
T d1kaoa_          23 FVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIR  102 (167)
T ss_dssp             HHHSCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCCccCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecchhhhhhhhchhhhhhh
Confidence            35788999999999988888889999999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ....+++|+++||||+|+.+.+.+..+++..+++.+++++++|||++|.||+++|+++++++.
T Consensus       103 ~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         103 VKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             hccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            766678999999999999888889999999999999999999999999999999999998874

>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=3.5e-32  Score=181.72  Aligned_cols=143  Identities=30%  Similarity=0.469  Sum_probs=124.4

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.+++.||++..+ .+....++..+.+++||++|++++..+++.+++++|++++|||+++++||+.+..|+..+.
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~  102 (167)
T d1z08a1          23 YCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELR  102 (167)
T ss_dssp             HHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcc
Confidence            357899999999999665 7788889999999999999999999999999999999999999999999999999998876


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .... ...|++++|||+|+.+.+.++.+++..+++++++++++|||++|.||+++|++|++.+++
T Consensus       103 ~~~~-~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         103 KMLG-NEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             HHHG-GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cccc-cccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            6543 567999999999999889999999999999999999999999999999999999998864

>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=99.98  E-value=9e-32  Score=182.55  Aligned_cols=143  Identities=26%  Similarity=0.455  Sum_probs=126.1

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+++.||+++.+.+.+..++..+++++||++|++++..++..+++++|++++|||+++++||+++..|+....+
T Consensus        29 ~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~  108 (185)
T d2atxa1          29 YANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELK  108 (185)
T ss_dssp             HHHSSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH
T ss_pred             HhhCCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHHHHHHHHHHHHH
Confidence            46789999999999988888888899999999999999999999999999999999999999999999988755444444


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... .+.|+++||||+|+.+            .+.++.+++.++|++++ ++|+||||++|.||+++|+.++++++.
T Consensus       109 ~~~-~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il~  184 (185)
T d2atxa1         109 EYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAILT  184 (185)
T ss_dssp             HHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             hcC-CCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHcC
Confidence            332 6799999999999864            46789999999999998 789999999999999999999998853

>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=99.98  E-value=2.3e-31  Score=178.30  Aligned_cols=143  Identities=29%  Similarity=0.462  Sum_probs=131.2

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+.+.|+++..+ .+.+.+++..+++++|||+|+++|..+++.++++++++++|||++++.++..+..|+..+.+
T Consensus        26 ~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~  105 (171)
T d2ew1a1          26 TQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQ  105 (171)
T ss_dssp             HHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcc
Confidence            46789999999998655 78889999999999999999999999999999999999999999999999999999998877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ... ...|+++||||+|+.+...++.+++.++++..++++++|||++|.||+++|.++++.++..
T Consensus       106 ~~~-~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         106 YAS-NKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ccc-ccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            643 5789999999999988889999999999999999999999999999999999999888754

>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=99.98  E-value=1.4e-31  Score=180.31  Aligned_cols=143  Identities=27%  Similarity=0.453  Sum_probs=126.2

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+.+.||+++.+.....+++..+.+++||++|++.+..+++.+++++|++|+|||+++++||+++..|+.....
T Consensus        22 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~  101 (177)
T d1kmqa_          22 NSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK  101 (177)
T ss_dssp             HHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH
T ss_pred             HHhCCCCCCcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccchhHHHHHHHHHHHHHHH
Confidence            35788999999999988888889999999999999999999999999999999999999999999999998865555444


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... +++|+++||||+|+.+            .+.++.+++.+++++++ ++|+||||++|.||+++|+.+++++++
T Consensus       102 ~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         102 HFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             HHS-TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HhC-CCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhC
Confidence            433 6799999999999853            35688999999999998 579999999999999999999998864

>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=99.98  E-value=3.7e-31  Score=177.03  Aligned_cols=143  Identities=32%  Similarity=0.528  Sum_probs=129.9

Q ss_pred             ccccccccccccccce-EEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDS-YTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~-~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+.+.|+++.. ..+.+..++..+++++|||||++++..+++.+++++|++|+|||+++++++..+..|+..+..
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~  105 (169)
T d3raba_          26 ADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKT  105 (169)
T ss_dssp             HHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhc
Confidence            4678899999999844 578888899999999999999999999999999999999999999999999999999887766


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .. ..+.|+++++||+|+.+.+.++.+++..+++++++++++|||++|.||+++|+++++.+.++
T Consensus       106 ~~-~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~ek  169 (169)
T d3raba_         106 YS-WDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK  169 (169)
T ss_dssp             HC-CSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHTC
T ss_pred             cc-CCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhhC
Confidence            54 35789999999999998889999999999999999999999999999999999999988653

>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=99.97  E-value=3.7e-31  Score=180.30  Aligned_cols=148  Identities=29%  Similarity=0.490  Sum_probs=129.6

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+++.||+++.+.....+++..+.+++||++|+++|..++..+++++|++++|||+++++||+++..|+.....
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~  102 (191)
T d2ngra_          23 YTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEIT  102 (191)
T ss_dssp             HHHSCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH
T ss_pred             HHhCCCCCCcCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccchHHHHHHHHHHHHHHHh
Confidence            45789999999999988888888999999999999999999999999999999999999999999999999875555444


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ... .+.|+++||||+|+.+            .+.++.+++..++++++ ++|+||||++|.||+++|+.+++.+++...
T Consensus       103 ~~~-~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~~~~~  181 (191)
T d2ngra_         103 HHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPE  181 (191)
T ss_dssp             HHC-TTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHTSCCS
T ss_pred             hcC-CCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHhcCcC
Confidence            433 6799999999999853            35688999999999864 799999999999999999999998877654


Q ss_pred             cC
Q psy11289        149 QC  150 (159)
Q Consensus       149 ~~  150 (159)
                      ..
T Consensus       182 ~k  183 (191)
T d2ngra_         182 PK  183 (191)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>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=99.97  E-value=1.6e-30  Score=173.37  Aligned_cols=143  Identities=59%  Similarity=0.892  Sum_probs=132.3

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.+.+.||+++.+...+..++..+.+.+||++|++.+...++.++++++++++|||++++.+++.+.+|+..+.+
T Consensus        23 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~  102 (166)
T d1ctqa_          23 LIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKR  102 (166)
T ss_dssp             HHHCCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HHhCCCCCccCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccccccHHHHHHHHHHHHH
Confidence            35678999999999999888888899999999999999999999999999999999999999999999999999999998


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .....++|+++|+||+|+.. +.++.+++.++++.+++++++|||++|.||+++|+++++.+.+
T Consensus       103 ~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         103 VKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            87767899999999999864 6677889999999999999999999999999999999998864

>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=99.97  E-value=1.7e-30  Score=173.30  Aligned_cols=140  Identities=31%  Similarity=0.514  Sum_probs=129.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.++++|+++..+ .....+++..+++++||++|++++..++..+++++|++++|||+++++|++.+..|+..+.+
T Consensus        25 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~  104 (166)
T d1z0fa1          25 TEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARN  104 (166)
T ss_dssp             HHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHh
Confidence            46789999999998665 78888999999999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... ...|++++|||+|+.....++.+++..+++++++++++|||++|.||+++|+++++.+
T Consensus       105 ~~~-~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         105 LTN-PNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hcc-ccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            654 6789999999999988888989999999999999999999999999999999999876

>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=99.97  E-value=9e-31  Score=174.21  Aligned_cols=142  Identities=31%  Similarity=0.514  Sum_probs=129.9

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.+.+.|+++... ......++..+.+.+||++|++++...+..++++++++++|||++++.|++.+..|+..+.
T Consensus        20 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~   99 (164)
T d1yzqa1          20 FMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVR   99 (164)
T ss_dssp             HHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeeccccccchhhhHhhHHHHH
Confidence            356789999999998554 7777788999999999999999999999999999999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      +... .+.|+++||||.|+.+.+.+..+++.++++++++++++|||++|.||+++|++|++++.
T Consensus       100 ~~~~-~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         100 TERG-SDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             HHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             HhcC-CCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhhC
Confidence            7654 57899999999999888889999999999999999999999999999999999998763

>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=99.97  E-value=2.3e-30  Score=172.75  Aligned_cols=140  Identities=29%  Similarity=0.487  Sum_probs=129.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+++.||++..+ ......++....+++||++|++++..++..++++++++|+|||++++++|..+..|+..+..
T Consensus        25 ~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  104 (167)
T d1z0ja1          25 VEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQ  104 (167)
T ss_dssp             HHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeechhhhhhhHHHhhhhhhh
Confidence            56789999999999776 67777788999999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ... .+.|+++||||+|+.+.+.++.+++.++++.+++++++|||++|.||+++|.++++++
T Consensus       105 ~~~-~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         105 HGP-PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             HSC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             ccC-CcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            654 6889999999999998889999999999999999999999999999999999999876

>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=99.97  E-value=6.2e-31  Score=178.35  Aligned_cols=147  Identities=30%  Similarity=0.524  Sum_probs=130.4

Q ss_pred             ccccccccccccccceE-EEEEEECC----------eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHH
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDD----------IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEE   71 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~----------~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~   71 (159)
                      +.+.|.+++.||.+..+ .+.+.+++          ..+.+++||++|+++|..++..+++++|++|+|||++++.+++.
T Consensus        26 ~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~  105 (186)
T d2f7sa1          26 TDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLN  105 (186)
T ss_dssp             HCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHH
T ss_pred             hcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEEEEecccccccee
Confidence            46788899999998665 56655533          35788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         72 IYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        72 ~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      +..|+..+.........|+++||||.|+.+.+.++.+++.++++++++++++|||++|.||+++|+++++.+.+++.+
T Consensus       106 ~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         106 VRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  183 (186)
T ss_dssp             HHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             eeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            999998877765556789999999999998899999999999999999999999999999999999999999876644

>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=99.97  E-value=2.8e-30  Score=172.84  Aligned_cols=142  Identities=27%  Similarity=0.485  Sum_probs=130.6

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+.+.||.+..+ ......++..+.+.+||++|++++..+++.++++++++++|||+++++++..+..|+..+.+
T Consensus        27 ~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~  106 (170)
T d1r2qa_          27 VKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQR  106 (170)
T ss_dssp             HHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHHHHHHHHhhhhhh
Confidence            56789999999999776 67788899999999999999999999999999999999999999999999999999988877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ... ++.|+++||||+|+.+.+.++.+++..+++.+++++++|||++|.||+++|++|++.+.+
T Consensus       107 ~~~-~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~~  169 (170)
T d1r2qa_         107 QAS-PNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK  169 (170)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSCC
T ss_pred             ccC-CCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            543 679999999999999889999999999999999999999999999999999999987643

>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=99.97  E-value=5.2e-30  Score=172.05  Aligned_cols=146  Identities=29%  Similarity=0.486  Sum_probs=133.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||.+... ...+..++..+.+++||++|++++..+++.++++++++++|||.++++++..+..|+..+..
T Consensus        26 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  105 (174)
T d2bmea1          26 IEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARM  105 (174)
T ss_dssp             HHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             HhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhHHHHhhhhccccc
Confidence            46789999999998665 67778899999999999999999999999999999999999999999999999999999877


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ... .++|+++||||+|+.....++...+..+++.+++++++|||++|.|++++|+++++.+.++..+
T Consensus       106 ~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~~~  172 (174)
T d2bmea1         106 LAS-QNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIES  172 (174)
T ss_dssp             HSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHS
T ss_pred             ccC-CceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHHHhc
Confidence            654 6799999999999988888989999999999999999999999999999999999999877544

>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=99.97  E-value=1.7e-30  Score=174.42  Aligned_cols=144  Identities=32%  Similarity=0.525  Sum_probs=112.3

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ .+.+.+++..+.+++||+||++.+..+++.+++++|++|+|||++++.|+..+..|+..+..
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~  106 (173)
T d2fu5c1          27 SEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEE  106 (173)
T ss_dssp             -------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             HhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhh
Confidence            46788899999999554 88899999999999999999999999999999999999999999999999999999988876


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||.|+........+++..+++..++++++|||++|.||+++|+++++.+..+.
T Consensus       107 ~~~-~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         107 HAS-ADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             HSC-TTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             hcc-CCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            543 67999999999999888888888899999999999999999999999999999999987654

>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=99.97  E-value=2.3e-31  Score=178.22  Aligned_cols=141  Identities=25%  Similarity=0.470  Sum_probs=121.2

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.+++.||++..+ .+.+..++..+.+++||++|++.+..+++.++++++++++|||+++++||+.+..|+..+.
T Consensus        23 ~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~  102 (170)
T d1i2ma_          23 HLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV  102 (170)
T ss_dssp             TC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHH
T ss_pred             HHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHh
Confidence            467889999999999555 7888889999999999999999999999999999999999999999999999999999988


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      +..  .++|+++||||+|+...+..  +++..+++..++++++|||++|.||+++|++|++.+...
T Consensus       103 ~~~--~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~  164 (170)
T d1i2ma_         103 RVC--ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  164 (170)
T ss_dssp             HHH--CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHTC
T ss_pred             hcc--CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            876  57999999999999765443  345678888999999999999999999999999988743

>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=99.97  E-value=4.7e-30  Score=175.18  Aligned_cols=144  Identities=32%  Similarity=0.504  Sum_probs=132.4

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.||++..+ ...+.+++..+.+.+|||+|++++..++..++++++++|+|||+++++++..+..|+..+.+
T Consensus        27 ~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~  106 (194)
T d2bcgy1          27 SDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDR  106 (194)
T ss_dssp             HHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHH
T ss_pred             hhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhh
Confidence            56789999999999766 67889999999999999999999999999999999999999999999999999999888876


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ... .+.|+++|+||+|+.+...++.++...+++..++++++|||++|.||+++|+++++.+.+..
T Consensus       107 ~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         107 YAT-STVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM  171 (194)
T ss_dssp             HSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             ccc-CCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHHh
Confidence            543 67899999999999998999999999999999999999999999999999999999887654

>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=99.97  E-value=1.2e-29  Score=170.29  Aligned_cols=146  Identities=29%  Similarity=0.494  Sum_probs=128.0

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +++.|.+.+.|+.+... ......++..+.+.+||++|++.+..+++.+++++|++++|||+++++||+.+..|+..+.+
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~  103 (173)
T d2a5ja1          24 TDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ  103 (173)
T ss_dssp             HHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHH
T ss_pred             hcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecChHHHHhHHHHHHHHHH
Confidence            56788899999988554 77777889999999999999999999999999999999999999999999999999999887


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      ... .++|+++||||+|+...+.+..+++..+++.+++++++|||++|.||+++|.++++.+.++..+
T Consensus       104 ~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~~~  170 (173)
T d2a5ja1         104 HSS-SNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ  170 (173)
T ss_dssp             HSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             hCC-CCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHHHc
Confidence            654 6789999999999988888999999999999999999999999999999999999998876543

>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=99.97  E-value=1.1e-29  Score=169.94  Aligned_cols=141  Identities=26%  Similarity=0.484  Sum_probs=127.5

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|.+.+.||++..+ .+.+..++..+.+++||++|++++..+++.+++++|++++|||+++++|++.+..|+..+.
T Consensus        23 ~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~  102 (170)
T d1ek0a_          23 FVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELH  102 (170)
T ss_dssp             HHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHH
T ss_pred             HHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccchhhhhhhhhhhc
Confidence            467899999999999776 7888999999999999999999999999999999999999999999999999999988776


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC---cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH---QRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .... ...|+++++||+|+.+   .+.++.+++.++++.+++++++|||++|.||+++|.+|++++
T Consensus       103 ~~~~-~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         103 EQAS-KDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHSC-TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             cccc-cccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            6543 5789999999999854   477889999999999999999999999999999999998654

>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=99.97  E-value=2.2e-29  Score=169.14  Aligned_cols=147  Identities=27%  Similarity=0.461  Sum_probs=129.9

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|...+.|+++... ...+.+++..+.+.+||++|+++|..++..++++++++|+|||.++++|+..+.+|+..+.
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~  103 (175)
T d2f9la1          24 FTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELR  103 (175)
T ss_dssp             HHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCCcccchhHHHHHHHHH
Confidence            356788999999998554 7888899999999999999999999999999999999999999999999999999999998


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcccc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTKQ  149 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~~  149 (159)
                      +... +++|+++||||+|+.+.+....+....++...+.++++|||++|.|++++|+++++.+.+...+
T Consensus       104 ~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~~  171 (175)
T d2f9la1         104 DHAD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQ  171 (175)
T ss_dssp             HHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             HhcC-CCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHHhhh
Confidence            8765 6789999999999988788888888889999999999999999999999999999998765544

>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=99.97  E-value=2.9e-30  Score=174.23  Aligned_cols=143  Identities=27%  Similarity=0.395  Sum_probs=126.1

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      ++++.|.++|.||+++.+.+.+.+++..+.+++||++|++.+...++.+++++|++++|||+++++||+.+..|+.....
T Consensus        22 ~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~  101 (179)
T d1m7ba_          22 FAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQ  101 (179)
T ss_dssp             HHHSCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH
T ss_pred             HHhCCCCCccCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheeeecccCCCHHHHHHHHHHHHh
Confidence            45788999999999988888888999999999999999999998999999999999999999999999999876655444


Q ss_pred             hcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCC-CHHHHHHHHHHHHHh
Q psy11289         82 VKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRI-NVDQAFHELVRIVLL  145 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~-~i~~~~~~l~~~~~~  145 (159)
                      ... .+.|+++||||+|+..            .+.++.+++..+|++++ ++|+||||++|. +++++|+.+++.+++
T Consensus       102 ~~~-~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         102 EFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             HHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             ccC-CcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            433 5899999999999853            46688999999999987 579999999998 599999999998875

>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=99.97  E-value=4.1e-29  Score=167.11  Aligned_cols=141  Identities=29%  Similarity=0.548  Sum_probs=118.3

Q ss_pred             ccccccccc-cccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          3 IESYFVTDY-DPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         3 ~~~~f~~~~-~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +++.|.+++ +|+++..+ ...+..++..+++++|||+|++++..++..+++++|++++|||+++++|+..+..|+..+.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  106 (170)
T d2g6ba1          27 KDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIH  106 (170)
T ss_dssp             HHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhh
Confidence            466775554 56667554 7788899999999999999999999999999999999999999999999999999988877


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .... ...|+++|+||.|+.+...++.+++..+++.+++++++|||++|.||+++|+++++.+.
T Consensus       107 ~~~~-~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         107 EYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             HHSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hccC-CCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            7653 57899999999999998899999999999999999999999999999999999998875

>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=99.97  E-value=1.3e-29  Score=171.42  Aligned_cols=143  Identities=27%  Similarity=0.488  Sum_probs=125.4

Q ss_pred             cccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHH-HHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYK-FHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~-~~~~i~   80 (159)
                      ++++.|.+++.||+++.+.+.+..++..+++++||++|++.+..++..+++++|++++|||+++++||+++.. |...+.
T Consensus        25 ~~~~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~  104 (183)
T d1mh1a_          25 YTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVR  104 (183)
T ss_dssp             HHHSSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHH
T ss_pred             HHhCCCCcccccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccchHHHHHHHHHHHHHHHH
Confidence            4678899999999998888888999999999999999999999999999999999999999999999999986 554454


Q ss_pred             hhcCCCCCcEEEEEeCCCCCC------------cCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDH------------QRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ...  .++|+++||||+|+.+            .......++..++++++ ++|+||||++|.||+++|+++++.++..
T Consensus       105 ~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il~p  181 (183)
T d1mh1a_         105 HHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP  181 (183)
T ss_dssp             HHS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             HhC--CCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHcCC
Confidence            443  5789999999999853            24566778899999888 7899999999999999999999998754

>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=99.96  E-value=2.9e-29  Score=168.24  Aligned_cols=136  Identities=32%  Similarity=0.550  Sum_probs=117.4

Q ss_pred             ccccccc-ceEEEEEEECCeeEEEEEEeCCC---cccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCC
Q psy11289         10 DYDPTIE-DSYTKQCVIDDIPARLDILDTAG---QEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDR   85 (159)
Q Consensus        10 ~~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g---~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~   85 (159)
                      .+.||++ +.+.+.+.+++..+.+.+||+++   ++++  ++..+++++|++|+|||+++++|++.+..|+..+......
T Consensus        32 ~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~  109 (172)
T d2g3ya1          32 SDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT  109 (172)
T ss_dssp             CC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGG
T ss_pred             ccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeeecccccchhhhhhhhhhhhhhcccc
Confidence            3445555 56688899999999999999764   4444  5677889999999999999999999999999988776555


Q ss_pred             CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      +++|+++||||+|+.+.+.++.+++.++++.+++++++|||++|.||+++|+++++++..++
T Consensus       110 ~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         110 EDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             TTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHHHHHHHHHHcc
Confidence            68999999999999988899999999999999999999999999999999999999987654

>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=99.96  E-value=2.2e-28  Score=164.50  Aligned_cols=144  Identities=31%  Similarity=0.503  Sum_probs=131.0

Q ss_pred             ccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHh
Q psy11289          3 IESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILR   81 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~   81 (159)
                      +.+.|.+.+.|+.+..+ .+.+.+++..+++.+||++|++++..+++.+++++|++++|||++++++++.+..|+.++.+
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~  107 (177)
T d1x3sa1          28 TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELET  107 (177)
T ss_dssp             HHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTT
T ss_pred             HhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcc
Confidence            46788999999998665 77888999999999999999999999999999999999999999999999999999999988


Q ss_pred             hcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         82 VKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        82 ~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .......|+++++||.|..+ +.++..++.++++.+++++++|||++|.|++++|+++++.+.+..
T Consensus       108 ~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~p  172 (177)
T d1x3sa1         108 YCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  172 (177)
T ss_dssp             CCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             cccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHccCc
Confidence            76666789999999999754 778889999999999999999999999999999999999998653

>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=99.96  E-value=9.9e-29  Score=164.57  Aligned_cols=143  Identities=33%  Similarity=0.568  Sum_probs=121.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|.+.+.||++..+ .+.+.+++..+.+.+||+||++++..+++.++++++++++|||.++++|++.+..|+..+.
T Consensus        22 l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~  101 (166)
T d1g16a_          22 FVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVN  101 (166)
T ss_dssp             HHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccCHHHHHhhhhhhh
Confidence            356789999999999665 7888999999999999999999999999999999999999999999999999999888877


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .... ...|++++++|.|+.+ +....+++..+++++++++++|||++|.||+++|+++++.+.++
T Consensus       102 ~~~~-~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         102 EHAN-DEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             HHSC-TTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cccc-Ccceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            7654 5678999999999754 66678899999999999999999999999999999999988664

>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=99.96  E-value=4.7e-28  Score=161.01  Aligned_cols=138  Identities=28%  Similarity=0.401  Sum_probs=124.3

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchH-HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~-~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ++.+.|.+.++||++..+ .+...+++....+.+||++|...+.. .++.+++++|++++|||+++++||+.+..|+..+
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i  101 (165)
T d1z06a1          22 FCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEEC  101 (165)
T ss_dssp             HHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhhhhhhhhhhHHH
Confidence            457889999999999666 78888899999999999999877654 5788999999999999999999999999999999


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCC---CCCHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKV---RINVDQAFHEL  139 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~~~~~l  139 (159)
                      .+.....++|+++||||+|+.+.+.++.+++.++++++++++++|||++   +.||+++|++|
T Consensus       102 ~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1         102 KQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             HHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             HhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHHHHh
Confidence            8877667899999999999988888999999999999999999999997   46999999887

>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=99.96  E-value=1.6e-27  Score=159.89  Aligned_cols=143  Identities=37%  Similarity=0.559  Sum_probs=123.7

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++.+.|.+++.||++..+ .+....++..+.+++||++|..++...++.++..+++++++||.+++.|++.+..|++++.
T Consensus        26 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~  105 (174)
T d1wmsa_          26 YVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFI  105 (174)
T ss_dssp             HHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHH
Confidence            356889999999999765 7778889999999999999999998899999999999999999999999999999998887


Q ss_pred             hhcC---CCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         81 RVKD---RDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        81 ~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ....   ..+.|+++||||+|+.+ +.++.+++.+++++.+ +++++|||++|.||+++|+++++.++.
T Consensus       106 ~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         106 YYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             HHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence            6543   34689999999999865 6788999999999875 899999999999999999999998864

>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=99.96  E-value=2.8e-28  Score=163.57  Aligned_cols=146  Identities=34%  Similarity=0.576  Sum_probs=112.2

Q ss_pred             cccccccccccccccceE-EEEEEE-CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVI-DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~-~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ++.+.|.+.+.||.+... ...... +...+.+.+||++|++++...+..+++.++++++|||++++.||+.+..|+.++
T Consensus        22 ~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i  101 (175)
T d1ky3a_          22 YVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEF  101 (175)
T ss_dssp             HHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEeecccccccchhhhcchhh
Confidence            356788999999998665 334333 456678899999999999999999999999999999999999999999999998


Q ss_pred             HhhcC---CCCCcEEEEEeCCCCCCc-CCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         80 LRVKD---RDEFPMLMVGNKADLDHQ-RQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        80 ~~~~~---~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .....   ..++|+++||||+|+.+. +.++.+++.++++.++ +++++|||++|.||+++|+++++.+++++
T Consensus       102 ~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         102 LVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            76543   247899999999999765 4478889999999986 88999999999999999999999887654

>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=99.95  E-value=6.8e-27  Score=157.02  Aligned_cols=140  Identities=24%  Similarity=0.433  Sum_probs=118.2

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|. .+.||.++.+.+.+.++|..+.+++||++|+.++     .|++++|++|+|||+++++||+.+..|+..+...
T Consensus        26 ~~~~f~-~~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~   99 (175)
T d2bmja1          26 LTGSYQ-VLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSL   99 (175)
T ss_dssp             HHSCCC-CCCCSSCEEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHH
T ss_pred             HhCCCC-CcCCccceeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeecccchhhhhhHHHHHHHHHH
Confidence            456674 4668888888888899999999999999999874     4788999999999999999999999999888765


Q ss_pred             cC--CCCCcEEEEEeCCCCC--CcCCCCHHHHHHHHHH-cCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         83 KD--RDEFPMLMVGNKADLD--HQRQVSSMDAQNVARQ-LRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        83 ~~--~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..  ..++|+++|+||.|+.  ..+.++.+++..++.+ .+++|+||||++|.|++++|..+++.+...+.
T Consensus       100 ~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~~  170 (175)
T d2bmja1         100 RGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRK  170 (175)
T ss_dssp             CC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHHHhhh
Confidence            42  3567999999988864  4567888889888765 46899999999999999999999998887654

>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=99.95  E-value=1.7e-27  Score=160.97  Aligned_cols=146  Identities=36%  Similarity=0.588  Sum_probs=126.3

Q ss_pred             cccccccccccccccceE-EEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          2 KIESYFVTDYDPTIEDSY-TKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         2 ~~~~~f~~~~~pt~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ++++.|.++|.||++..+ .+.....+..+.+++||++|...+...+..++..++++++|||++++.++..+..|+..+.
T Consensus        22 l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~  101 (184)
T d1vg8a_          22 YVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFL  101 (184)
T ss_dssp             HHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHH
T ss_pred             HHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccchhhhhcchhhHHHHH
Confidence            356889999999998655 7788889999999999999999988888999999999999999999999999999999887


Q ss_pred             hhcCC---CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-cCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         81 RVKDR---DEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-LRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        81 ~~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      .....   .++|+++||||+|+.+ +.+..++...++.. .++++++|||++|.||+++|+++++.+.+++.
T Consensus       102 ~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         102 IQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQET  172 (184)
T ss_dssp             HHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             HHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHhccc
Confidence            76532   3679999999999866 55666677777654 57999999999999999999999999887654

>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=99.92  E-value=3.2e-26  Score=152.05  Aligned_cols=135  Identities=21%  Similarity=0.297  Sum_probs=108.0

Q ss_pred             ccccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhh
Q psy11289          3 IESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRV   82 (159)
Q Consensus         3 ~~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~   82 (159)
                      +.+.|.+++.||++..+. .+..++  +.+++||+||++.+...+..++.+++++++|||+++++++..+..|+..+.+.
T Consensus        23 ~~~~~~~~~~~T~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~   99 (164)
T d1zd9a1          23 ASGQFNEDMIPTVGFNMR-KITKGN--VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK   99 (164)
T ss_dssp             HHSCCCCSCCCCCSEEEE-EEEETT--EEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTC
T ss_pred             HcCCCCCcccccceeeee-eeeeee--EEEEEeeccccccccccccccccccchhhcccccccccccchhhhhhhhhhhh
Confidence            457888999999986543 334454  55677999999999999999999999999999999999999999998888776


Q ss_pred             cCCCCCcEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         83 KDRDEFPMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...+++|+++|+||.|+.+..  +..+..+.     ++..+++++++||++|.|++++|++|++.
T Consensus       100 ~~~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         100 PQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             GGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             hcccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            655789999999999986433  23322222     22335679999999999999999999875

>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=99.91  E-value=2.5e-24  Score=142.74  Aligned_cols=134  Identities=19%  Similarity=0.229  Sum_probs=103.2

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCC
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRD   86 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~   86 (159)
                      ....+.||.+... ..+..++  +.+.+||++|++.+...+..+++.++++++|||+++..++..+..|+..........
T Consensus        26 ~~~~~~~t~~~~~-~~~~~~~--~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~  102 (165)
T d1ksha_          26 DVDTISPTLGFNI-KTLEHRG--FKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLA  102 (165)
T ss_dssp             CCSSCCCCSSEEE-EEEEETT--EEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGT
T ss_pred             CCCcccceEeeee-eeccccc--cceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccC
Confidence            3456778887443 2334444  556779999999998889999999999999999999999999887777766554456


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHH--H---HcCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVA--R---QLRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~--~---~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ++|+++|+||+|+.+...+  ++.....  .   ..++++++|||++|.|+.++|++|++++..
T Consensus       103 ~~p~iiv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         103 GATLLIFANKQDLPGALSC--NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             TCEEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCceEEEEeccccccccCH--HHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHHc
Confidence            7999999999999754433  3332221  1   224578999999999999999999998864

>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=99.90  E-value=1.8e-25  Score=150.66  Aligned_cols=134  Identities=16%  Similarity=0.233  Sum_probs=100.3

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ....||.+... ......+  +++.+||++|++++..++..++++++++++|||++++.++..+..|+..+.+.....+.
T Consensus        43 ~~~~~t~~~~~-~~~~~~~--~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~  119 (182)
T d1moza_          43 VTTKPTIGFNV-ETLSYKN--LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDA  119 (182)
T ss_dssp             EEECSSTTCCE-EEEEETT--EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSC
T ss_pred             CccccccceEE-EEEeeCC--EEEEEEecccccccchhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCc
Confidence            34557776543 2233344  55677999999999999999999999999999999999999999988887766555679


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      |+++|+||+|+.+.  .+.++..+.     +...++++++|||++|.|++++|++|++.+.+++
T Consensus       120 piliv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~~  181 (182)
T d1moza_         120 ALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ  181 (182)
T ss_dssp             EEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeeccccc--cCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            99999999998642  233333322     2233567999999999999999999999987654

>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=99.90  E-value=7.6e-24  Score=141.72  Aligned_cols=133  Identities=20%  Similarity=0.248  Sum_probs=100.3

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|.. +.|+.+.. ...+...  .+.+++||++|++++...+..+++.+|++++|||++++.++..+..|+..+....
T Consensus        38 ~~~~~~-~~~~~~~~-~~~i~~~--~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~  113 (176)
T d1fzqa_          38 SEDISH-ITPTQGFN-IKSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEE  113 (176)
T ss_dssp             CSCCEE-EEEETTEE-EEEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCG
T ss_pred             cCCCCc-ceeeeeee-EEEeccC--CeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhh
Confidence            444532 33455533 2333334  4567779999999999999999999999999999999999999998888877766


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCCCHHHHHHH-----HHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQVSSMDAQNV-----ARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ...++|+++++||+|+.+...  .....+.     ++..++++++|||++|.|++++|+||++.
T Consensus       114 ~~~~~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         114 KLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             GGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             ccCCCeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            556889999999999975432  2222221     22234679999999999999999999875

>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=99.89  E-value=9.6e-24  Score=141.05  Aligned_cols=114  Identities=17%  Similarity=0.270  Sum_probs=92.0

Q ss_pred             eeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH
Q psy11289         28 IPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        28 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      ..+.+.+||+||++.+...+..++++++++++|||+++.+++..+..|+..+.+.....+.|+++++||+|+.+...  .
T Consensus        54 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~--~  131 (173)
T d1e0sa_          54 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMK--P  131 (173)
T ss_dssp             TTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCC--H
T ss_pred             cceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHHHHHHHHhhhcccccceeeeeeeccccccccc--H
Confidence            34566779999999999999999999999999999999999999998888877654446789999999999875322  2


Q ss_pred             HHHHH-----HHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        108 MDAQN-----VARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       108 ~~~~~-----~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .+...     .+...++++++|||++|.||+++|++|.+.+
T Consensus       132 ~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         132 HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            22222     1222356799999999999999999998754

>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=99.85  E-value=5.6e-22  Score=130.09  Aligned_cols=118  Identities=15%  Similarity=0.241  Sum_probs=97.7

Q ss_pred             EECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         24 VIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        24 ~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      ..+...+.+.+||++|...+...+..+++++++++++||.+++.++..+..|+.++.........|+++++||.|+.+..
T Consensus        38 ~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~  117 (160)
T d1r8sa_          38 TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM  117 (160)
T ss_dssp             EEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC
T ss_pred             EEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc
Confidence            45667788888999999999999999999999999999999999999999998888776655678999999999986433


Q ss_pred             CCCHHHH-----HHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        104 QVSSMDA-----QNVARQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       104 ~~~~~~~-----~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .  ..+.     ..+++..++++++|||++|.|++++|++|++++
T Consensus       118 ~--~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         118 N--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             C--HHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             c--HHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            2  2222     223444567899999999999999999998763

>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=99.75  E-value=2.3e-19  Score=121.50  Aligned_cols=138  Identities=14%  Similarity=0.032  Sum_probs=99.4

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh-----------hHHHH
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN-----------SFEEI   72 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~-----------s~~~~   72 (159)
                      .+.|  ++.||+|..+.   ++....+.+++||++|++++...|..+++++++++++||.++..           .++..
T Consensus        24 ~~~~--~~~pTiG~~~~---~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~   98 (200)
T d2bcjq2          24 IIHG--SGVPTTGIIEY---PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESK   98 (200)
T ss_dssp             HHTS--SCCCCCSCEEE---EEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHH
T ss_pred             CCCC--CCCceeeEEEE---EEeccceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhccccchHHHH
Confidence            4556  57899996643   33455567788999999999999999999999999999998864           34455


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC----------------CCCHHHHHHHHHH----------cCCcEEEeCC
Q psy11289         73 YKFHRQILRVKDRDEFPMLMVGNKADLDHQR----------------QVSSMDAQNVARQ----------LRIPYIECSA  126 (159)
Q Consensus        73 ~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~~----------~~~~~~~~sa  126 (159)
                      ..|...+... ...+.|+++++||.|+.+.+                .-+......+...          ..+.++++||
T Consensus        99 ~~~~~~l~~~-~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSA  177 (200)
T d2bcjq2          99 ALFRTIITYP-WFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCA  177 (200)
T ss_dssp             HHHHHHHHCG-GGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCT
T ss_pred             HHHHHHHhhh-hccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEE
Confidence            5665555443 33688999999999973211                1222233332211          1245789999


Q ss_pred             CCCCCHHHHHHHHHHHHHhcc
Q psy11289        127 KVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       127 ~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      ++|.||.++|+.+.+.+.+..
T Consensus       178 k~~~ni~~vF~~i~~~I~~~n  198 (200)
T d2bcjq2         178 TDTENIRFVFAAVKDTILQLN  198 (200)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHH
T ss_pred             EcCHhHHHHHHHHHHHHHHHh
Confidence            999999999999998887653

>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=99.74  E-value=1.5e-18  Score=115.44  Aligned_cols=117  Identities=19%  Similarity=0.245  Sum_probs=88.0

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      ....+.  .+.+||+++.+.+...+..++..++++++++|.++.+++.....+...........+.|+++|+||+|+...
T Consensus        54 ~~~~~~--~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  131 (177)
T d1zj6a1          54 IVINNT--RFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC  131 (177)
T ss_dssp             EEETTE--EEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             Eeecce--EEEEeccccccccccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEccccccc
Confidence            344444  456699999999888899999999999999999999999888776666665555568899999999998654


Q ss_pred             CCCCHHHHHHHH-----HHcCCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        103 RQVSSMDAQNVA-----RQLRIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       103 ~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ..  ..+.....     ...++++++|||++|.|++++|++|++++
T Consensus       132 ~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         132 MT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             CC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             Cc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            33  22332222     22346799999999999999999999876

>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=99.73  E-value=2.6e-18  Score=115.73  Aligned_cols=137  Identities=13%  Similarity=0.087  Sum_probs=92.7

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhH----------HHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSF----------EEIYKFH   76 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~----------~~~~~~~   76 (159)
                      |..+..||++..   ...++...+++++||++|++++.+++..++++++++++|||.++.+++          .+...++
T Consensus        22 ~~~~~~~t~~~~---~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~   98 (195)
T d1svsa1          22 MKIIHEAGTGIV---ETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLF   98 (195)
T ss_dssp             HHHHHSCCCSEE---EEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHH
T ss_pred             HhhCCCCCccEE---EEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHH
Confidence            333445666532   233444556678899999999999999999999999999999998765          2223333


Q ss_pred             HHHHhhcCCCCCcEEEEEeCCCCCCc---------------CCCCHHHHHH-----HHHH------cCCcEEEeCCCCCC
Q psy11289         77 RQILRVKDRDEFPMLMVGNKADLDHQ---------------RQVSSMDAQN-----VARQ------LRIPYIECSAKVRI  130 (159)
Q Consensus        77 ~~i~~~~~~~~~p~ivv~nK~D~~~~---------------~~~~~~~~~~-----~~~~------~~~~~~~~sa~~~~  130 (159)
                      ..+.......+.|+++++||.|+...               ......++..     +...      ..+.+++|||++|.
T Consensus        99 ~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~  178 (195)
T d1svsa1          99 DSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTK  178 (195)
T ss_dssp             HHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHH
T ss_pred             HHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCH
Confidence            44444333467899999999986211               1111222211     1111      12457899999999


Q ss_pred             CHHHHHHHHHHHHHhc
Q psy11289        131 NVDQAFHELVRIVLLH  146 (159)
Q Consensus       131 ~i~~~~~~l~~~~~~~  146 (159)
                      ||+++|+.+.+.++++
T Consensus       179 nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         179 NVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhc
Confidence            9999999999888764

>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=99.72  E-value=7.9e-18  Score=113.97  Aligned_cols=139  Identities=16%  Similarity=0.152  Sum_probs=94.6

Q ss_pred             cccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh----------hHHHHHHH
Q psy11289          6 YFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN----------SFEEIYKF   75 (159)
Q Consensus         6 ~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~----------s~~~~~~~   75 (159)
                      .|.+.+.||+|..+ ..+..+  .+++++||++|++.+...+..+++++++++++||.++..          .++....|
T Consensus        23 ~f~~~~~pTiG~~~-~~~~~~--~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (200)
T d1zcba2          23 RIIHGQDPTKGIHE-YDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNI   99 (200)
T ss_dssp             HHHHSCCCCSSEEE-EEEEET--TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHH
T ss_pred             hcCCCCCCeeeeEE-EEEeee--eeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHH
Confidence            36778899999543 334444  455677999999999999999999999999999998854          35566666


Q ss_pred             HHHHHhhcCCCCCcEEEEEeCCCCCCc----------------CCCCHHHHHHHHHHc-----------CCcEEEeCCCC
Q psy11289         76 HRQILRVKDRDEFPMLMVGNKADLDHQ----------------RQVSSMDAQNVARQL-----------RIPYIECSAKV  128 (159)
Q Consensus        76 ~~~i~~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~~~~~~-----------~~~~~~~sa~~  128 (159)
                      +..+.+.....++|+++++||.|+.+.                ..-..+.+.++....           .+.++++||++
T Consensus       100 ~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d  179 (200)
T d1zcba2         100 FETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAIN  179 (200)
T ss_dssp             HHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTC
T ss_pred             HHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeC
Confidence            677666555568999999999997321                111223333332211           24577899999


Q ss_pred             CCCHHHHHHHHHHHHHhcc
Q psy11289        129 RINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       129 ~~~i~~~~~~l~~~~~~~~  147 (159)
                      +.||.++|+.+.+.+.+..
T Consensus       180 ~~ni~~vf~~v~d~i~~~~  198 (200)
T d1zcba2         180 TENIRLVFRDVKDTILHDN  198 (200)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHh
Confidence            9999999999988887654

>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=99.71  E-value=2.6e-17  Score=108.16  Aligned_cols=139  Identities=15%  Similarity=0.181  Sum_probs=99.9

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhc
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVK   83 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~   83 (159)
                      .+.|.+ ..||.+..+ .....++.  .+.+||.+|.+.+......++..++++++++|+.+..++.....++.......
T Consensus        27 ~~~~~~-~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (169)
T d1upta_          27 VGEVVT-TIPTIGFNV-ETVTYKNL--KFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEE  102 (169)
T ss_dssp             HSSCCC-CCCCSSEEE-EEEEETTE--EEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCG
T ss_pred             CCCCcc-eecccceee-eeeccCce--EEEEeeccccccccccchhhhhhhhhhhhhhhhhhcchhhhccchhhhhhhhh
Confidence            445543 234444332 23333444  55669999999988888899999999999999999999888887666655554


Q ss_pred             CCCCCcEEEEEeCCCCCCcCCC---CHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289         84 DRDEFPMLMVGNKADLDHQRQV---SSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus        84 ~~~~~p~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      .....|+++++||.|+.+....   ....+..++...++++++|||++|.||+++|++|++.+.++
T Consensus       103 ~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         103 ELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             GGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             ccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            4467899999999998753321   11111223444567899999999999999999999987543

>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=99.70  E-value=1.1e-16  Score=106.78  Aligned_cols=127  Identities=15%  Similarity=0.090  Sum_probs=86.6

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchH--------HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSA--------MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~--------~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      ...++|+...........+..+  .+|||||......        .....++++|++|+|+|++++.+... ..|...+.
T Consensus        34 ~~~~~tt~~~~~~~~~~~~~~~--~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~-~~i~~~l~  110 (178)
T d1wf3a1          34 SPRPQTTRKRLRGILTEGRRQI--VFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPED-ELVARALK  110 (178)
T ss_dssp             CSSSCCCCSCEEEEEEETTEEE--EEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHH-HHHHHHHG
T ss_pred             cccCCcccccccceeeeeeeee--eecccccccccccccchhcccccccccccccceeeeechhhhhcccc-cchhhhee
Confidence            4455566655555566677665  4599999854322        22344678999999999988654432 33444444


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ...  .++|+++|+||+|+.+..   .+....+.+.++ ..++++||++|.|++++++++++.+
T Consensus       111 ~~~--~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         111 PLV--GKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALM  169 (178)
T ss_dssp             GGT--TTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             ccc--cchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHHHhC
Confidence            332  468999999999986422   223344455555 4689999999999999999998765

>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=99.70  E-value=1.3e-16  Score=104.09  Aligned_cols=128  Identities=19%  Similarity=0.350  Sum_probs=97.6

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF   88 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~   88 (159)
                      ..+.||.+.... ....++  +...+||++|...+...++.+...++++++++|.+++.++.....|+..........+.
T Consensus        26 ~~~~~t~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~  102 (166)
T d2qtvb1          26 ATLQPTWHPTSE-ELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDV  102 (166)
T ss_dssp             CCCCCCCSCEEE-EECCTT--CCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTC
T ss_pred             CeeeceeeEeEE-EeccCC--eeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchhhhhhhhHHHHhhhhhhccCCc
Confidence            356777765432 223334  44566999999998888999999999999999999999999988888887777766789


Q ss_pred             cEEEEEeCCCCCCcCCCCHHHHHHHHH------------HcCCcEEEeCCCCCCCHHHHHHHHHH
Q psy11289         89 PMLMVGNKADLDHQRQVSSMDAQNVAR------------QLRIPYIECSAKVRINVDQAFHELVR  141 (159)
Q Consensus        89 p~ivv~nK~D~~~~~~~~~~~~~~~~~------------~~~~~~~~~sa~~~~~i~~~~~~l~~  141 (159)
                      |++++++|.|+..  ..+..+..+...            ..++++++|||++|.|++++|+||.+
T Consensus       103 ~i~i~~~k~d~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         103 PFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             CEEEEEECTTSSS--CCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             eEEEEeccccccc--cCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence            9999999999864  233333332221            12356899999999999999999864

>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=99.63  E-value=2.3e-15  Score=100.05  Aligned_cols=127  Identities=16%  Similarity=0.284  Sum_probs=90.9

Q ss_pred             cccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE
Q psy11289         12 DPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML   91 (159)
Q Consensus        12 ~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i   91 (159)
                      .||.+... ..+..++..+  .+||+.+...+...+..+.+..+++++++|.+++..+.....++..........+.|++
T Consensus        42 ~~~~~~~~-~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~l  118 (186)
T d1f6ba_          42 VPTLHPTS-EELTIAGMTF--TTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPIL  118 (186)
T ss_dssp             -CCCCCSC-EEEEETTEEE--EEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEE
T ss_pred             ecccccce-eEEEeccccc--ccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceE
Confidence            45555442 3345566655  45999999988888889999999999999999999998887655555554445689999


Q ss_pred             EEEeCCCCCCcCCCCHHHHHHHHHHc-----------------CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         92 MVGNKADLDHQRQVSSMDAQNVARQL-----------------RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        92 vv~nK~D~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +++||.|++.  ..+..+..+.....                 ++++++|||++|.|++++|+||++++
T Consensus       119 i~~~K~D~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         119 ILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEeccCccc--cCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            9999999864  33444444433211                 24589999999999999999998754

>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=99.62  E-value=1.3e-14  Score=96.57  Aligned_cols=113  Identities=17%  Similarity=0.092  Sum_probs=77.7

Q ss_pred             EEEEEeCCCcccc-------hHHHHHHhhcCCEEEEEEECCCh--hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         31 RLDILDTAGQEEF-------SAMREQYMRSGEGFLLVFSVTDR--NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        31 ~~~l~D~~g~~~~-------~~~~~~~~~~~~~ii~v~d~~~~--~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      ++++|||||....       ....-..+..++++++++|....  .++.....|+.......  .++|+++|+||+|+.+
T Consensus        50 ~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~--~~~p~iiv~NK~D~~~  127 (180)
T d1udxa2          50 RFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPAL--LRRPSLVALNKVDLLE  127 (180)
T ss_dssp             EEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHH--HHSCEEEEEECCTTSC
T ss_pred             eEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhcccccc--chhhhhhhhhhhhhhh
Confidence            4566999995431       12233456789999999998653  34444444444332222  3579999999999875


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhcc
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHT  147 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~  147 (159)
                      .+.  .++..+.....+.+++++||++|.|++++++.+.+.+....
T Consensus       128 ~~~--~~~~~~~~~~~~~~~~~iSA~tg~gid~L~~~i~~~l~~~~  171 (180)
T d1udxa2         128 EEA--VKALADALAREGLAVLPVSALTGAGLPALKEALHALVRSTP  171 (180)
T ss_dssp             HHH--HHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHHTSC
T ss_pred             HHH--HHHHHHHHHhcCCeEEEEEcCCCCCHHHHHHHHHHHHhhcC
Confidence            432  23344455566889999999999999999999988775443

>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=99.61  E-value=5.3e-16  Score=101.49  Aligned_cols=124  Identities=26%  Similarity=0.292  Sum_probs=88.9

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcccch--------HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS--------AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~--------~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      ...+++++.+.....+...+.++.  +||++|.....        .....++.++|++++++|..+..++.....|...+
T Consensus        29 ~~~~~~~~~~~~~~~~~~~~~~~~--~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~  106 (161)
T d2gj8a1          29 VTDIAGTTRDVLREHIHIDGMPLH--IIDTAGLREASDEVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFI  106 (161)
T ss_dssp             CCSSTTCCCSCEEEEEEETTEEEE--EEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEEEEETTTCCCCSHHHHCHHHH
T ss_pred             eecccccccceEeeeeeccCceee--eccccccccccccchhHHHHHHHHHHHhccccceeeccccccchhhhhhhhhhh
Confidence            344455555555666777777655  59999975432        12345578999999999999988877776665555


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      ....  .+.|+++|+||+|+.+....       +.+..+.+++++||++|.|+++++++|.+.
T Consensus       107 ~~~~--~~~~iilv~NK~Dl~~~~~~-------~~~~~~~~~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         107 ARLP--AKLPITVVRNKADITGETLG-------MSEVNGHALIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             HHSC--TTCCEEEEEECHHHHCCCCE-------EEEETTEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             hhcc--cccceeeccchhhhhhhHHH-------HHHhCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            5443  57899999999998553221       112235789999999999999999999875

>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=99.59  E-value=1e-15  Score=105.41  Aligned_cols=137  Identities=15%  Similarity=0.107  Sum_probs=96.8

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh----------hHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN----------SFEEIYKFHRQ   78 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~----------s~~~~~~~~~~   78 (159)
                      ..+.||+|.. ...+.+++  +++++||++|+++++..|..++++++++++++|.++.+          ++.+...++..
T Consensus        29 ~~~~pTiG~~-~~~~~~~~--~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~  105 (221)
T d1azta2          29 LHVVLTSGIF-ETKFQVDK--VNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKS  105 (221)
T ss_dssp             HHCCCCCSCE-EEEEEETT--EEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHH
T ss_pred             CCcCCCCCeE-EEEEEECc--EEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHH
Confidence            3467999944 34455555  45677999999999999999999999999999998643          34455555566


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCC----C--------------------------CHHHHHHHH-----HHc------
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQ----V--------------------------SSMDAQNVA-----RQL------  117 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~----~--------------------------~~~~~~~~~-----~~~------  117 (159)
                      +.......++|++|++||+|+.+++.    .                          ....+..+.     ...      
T Consensus       106 il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~  185 (221)
T d1azta2         106 IWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDG  185 (221)
T ss_dssp             HHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTT
T ss_pred             HhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCC
Confidence            66655556899999999999843210    0                          022222221     111      


Q ss_pred             --CCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289        118 --RIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus       118 --~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                        .+..+++||.++.||..+|+.+...|++...
T Consensus       186 ~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~~l  218 (221)
T d1azta2         186 RHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHL  218 (221)
T ss_dssp             SCCEEEEECCTTCHHHHHHHHHTTHHHHHHHHH
T ss_pred             CCceeeeecceeccHHHHHHHHHHHHHHHHHHh
Confidence              1336789999999999999999888876643

>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=99.55  E-value=3.3e-14  Score=93.80  Aligned_cols=131  Identities=15%  Similarity=0.094  Sum_probs=79.8

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccc---------hHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEF---------SAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQI   79 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~---------~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i   79 (159)
                      .++++++.......+...+..+  .+||++|....         .......+..+|+++++.+.++...... ..++..+
T Consensus        29 ~~~~~~t~~~~~~~~~~~~~~~--~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i~~~~~~~~~~~~~~-~~~~~~l  105 (171)
T d1mkya1          29 EDEEGVTRDPVQDTVEWYGKTF--KLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKED-ESLADFL  105 (171)
T ss_dssp             --------CCSEEEEEETTEEE--EEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHH-HHHHHHH
T ss_pred             cccCceeecccccccccccccc--ccccccceeeeeccccccccccccccccccCcEEEEeecccccccccc-ccccccc
Confidence            3444555444444555555554  55999985221         2233445678999999999887655433 3344444


Q ss_pred             HhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHHHHhccc
Q psy11289         80 LRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRIVLLHTK  148 (159)
Q Consensus        80 ~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~~~~~~~  148 (159)
                      ..    .++|+++|+||+|+.++.  ..+...++.+....+++++||++|.|+++++++|.+.+.+...
T Consensus       106 ~~----~~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~~l~e~~~  168 (171)
T d1mkya1         106 RK----STVDTILVANKAENLREF--EREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEEKGL  168 (171)
T ss_dssp             HH----HTCCEEEEEESCCSHHHH--HHHTHHHHGGGSSCSCEECBTTTTBSHHHHHHHHHHHHHHTTC
T ss_pred             cc----ccccccccchhhhhhhhh--hhHHHHHHHhcCCCCeEEEecCCCCCHHHHHHHHHHhCCCCCC
Confidence            43    457999999999986321  1111222222223458999999999999999999998866543

>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=99.51  E-value=5.3e-13  Score=86.80  Aligned_cols=123  Identities=22%  Similarity=0.186  Sum_probs=81.1

Q ss_pred             cccccccccceEEEEEEECCeeEEEEEEeCCCcc--------cch-HHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHH
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQE--------EFS-AMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQ   78 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~--------~~~-~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~   78 (159)
                      ...+++++.......+..++..+.  +||+||..        ++. ......++++|++++|+|++++.+.....-+   
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~--~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~---  102 (160)
T d1xzpa2          28 VTDIPGTTRDVISEEIVIRGILFR--IVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKIL---  102 (160)
T ss_dssp             CCCSSCCSSCSCCEEEEETTEEEE--EEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHH---
T ss_pred             eeccccccccceeEEEEeCCeeEE--eccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhh---
Confidence            344445544555666677776655  59999952        111 1223346789999999999998766543322   


Q ss_pred             HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289         79 ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus        79 i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                        ...  ...|+++++||.|+.+..  ..++... ....+.+++++||++|.|+++++++|.++
T Consensus       103 --~~~--~~~~~i~~~~k~d~~~~~--~~~~~~~-~~~~~~~~~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         103 --ERI--KNKRYLVVINKVDVVEKI--NEEEIKN-KLGTDRHMVKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             --HHH--TTSSEEEEEEECSSCCCC--CHHHHHH-HHTCSTTEEEEEGGGTCCHHHHHHHHHHH
T ss_pred             --hhc--ccccceeeeeeccccchh--hhHHHHH-HhCCCCcEEEEECCCCCCHHHHHHHHHhc
Confidence              222  456899999999987533  2332222 11234789999999999999999998764

>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=99.51  E-value=4.3e-13  Score=90.93  Aligned_cols=99  Identities=17%  Similarity=0.287  Sum_probs=68.5

Q ss_pred             cccccccccccccceEEEEEEECCeeEEEEEEeCCCcccch-HHHHHHhhcCCEEEEEEECCChhhH-HHHHHHHHHHHh
Q psy11289          4 ESYFVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS-AMREQYMRSGEGFLLVFSVTDRNSF-EEIYKFHRQILR   81 (159)
Q Consensus         4 ~~~f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~-~~~~~~~~~~~~ii~v~d~~~~~s~-~~~~~~~~~i~~   81 (159)
                      .+.|... .||++..+......++..+.+.+||++|++++. ..+..+++.++++++|+|+++..++ .....|+..+..
T Consensus        22 ~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~  100 (207)
T d2fh5b1          22 TGQYRDT-QTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLI  100 (207)
T ss_dssp             HSCCCCB-CCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCcc-cCCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcccccccHHHHHHHHHHHHH
Confidence            3455554 466665553332235566778889999999885 4678888999999999999997664 455555544433


Q ss_pred             -hcC-CCCCcEEEEEeCCCCCCcC
Q psy11289         82 -VKD-RDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        82 -~~~-~~~~p~ivv~nK~D~~~~~  103 (159)
                       ... ...+|+++++||+|++...
T Consensus       101 ~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1         101 DSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             HHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             hHHHhhcCCcEEEEEECcccCCCC
Confidence             221 2457999999999997543

>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=99.48  E-value=3.9e-13  Score=89.36  Aligned_cols=115  Identities=13%  Similarity=0.138  Sum_probs=79.8

Q ss_pred             ECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCC
Q psy11289         25 IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQ  104 (159)
Q Consensus        25 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~  104 (159)
                      .++..  +.++|++|+..|.......+..+|++++++|+++....+... .+..+..    .++|+++|+||+|+.+...
T Consensus        56 ~~~~~--~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~-~~~~~~~----~~~p~iiv~NKiD~~~~~~  128 (179)
T d1wb1a4          56 LENYR--ITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGE-HMLILDH----FNIPIIVVITKSDNAGTEE  128 (179)
T ss_dssp             ETTEE--EEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHH-HHHHHHH----TTCCBCEEEECTTSSCHHH
T ss_pred             cCCcc--ccccccccccccccchhhhhhhccccccccccccccchhhhh-hhhhhhh----cCCcceeccccccccCHHH
Confidence            34444  455999999999888888889999999999999854333222 1222222    5689999999999865332


Q ss_pred             CC--HHHHHHHHHH-c---CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        105 VS--SMDAQNVARQ-L---RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       105 ~~--~~~~~~~~~~-~---~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                      ..  .+....+.+. .   +.+++++||++|.|++++++.|.+.+.+.
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         129 IKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             HHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCcc
Confidence            11  1111222222 1   36799999999999999999999877543

>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=99.45  E-value=2e-12  Score=86.06  Aligned_cols=131  Identities=21%  Similarity=0.182  Sum_probs=81.7

Q ss_pred             ccccccccccceEEEEEEECCeeEEEEEEeCCCcccch------------HHHHHHhhcCCEEEEEEECCChhhHHHHHH
Q psy11289          7 FVTDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS------------AMREQYMRSGEGFLLVFSVTDRNSFEEIYK   74 (159)
Q Consensus         7 f~~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~------------~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~   74 (159)
                      ...++.+|+.......+..++..+.+  +|++|.....            ......++.+|++++|+|++.+..-+. ..
T Consensus        35 ~~~~~~~t~~~~~~~~~~~~~~~~~~--~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dvii~v~d~~~~~~~~~-~~  111 (186)
T d1mkya2          35 LVSPIPGTTRDPVDDEVFIDGRKYVF--VDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQD-QR  111 (186)
T ss_dssp             EECCCC------CCEEEEETTEEEEE--SSCSCC-----------CCSCCHHHHHHHHHCSEEEEEEETTTCCCHHH-HH
T ss_pred             eeecccccccccceeeeccCCceeee--eccCCccccccccccccccchhHHHHHHHhcCCEEEEeecccccchhhH-HH
Confidence            34555566555555566778877555  9999875322            234455788999999999987543222 22


Q ss_pred             HHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH-c----CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         75 FHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ-L----RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        75 ~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~----~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ++..+..    .+.|+|+|+||+|+.........+......+ .    ..+++++||++|.|+++++++|.+.+.
T Consensus       112 ~~~~~~~----~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         112 MAGLMER----RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             HHHHHHH----TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHH----cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            3333333    4679999999999865444333443333322 1    257999999999999999999976554

>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=99.42  E-value=1.7e-12  Score=86.18  Aligned_cols=107  Identities=17%  Similarity=0.182  Sum_probs=68.2

Q ss_pred             EEEEeCCCcc-----------cch----HHHHHHhhcCCEEEEEEECCChhhHHHHH----------HHHHHHHhhcCCC
Q psy11289         32 LDILDTAGQE-----------EFS----AMREQYMRSGEGFLLVFSVTDRNSFEEIY----------KFHRQILRVKDRD   86 (159)
Q Consensus        32 ~~l~D~~g~~-----------~~~----~~~~~~~~~~~~ii~v~d~~~~~s~~~~~----------~~~~~i~~~~~~~   86 (159)
                      +++|||||..           ++.    .......+.+|++++|+|.+++.......          ..++.+..    .
T Consensus        45 ~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~----~  120 (184)
T d2cxxa1          45 HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE----L  120 (184)
T ss_dssp             EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH----T
T ss_pred             ceecccCCceeccccccccccccchhhhhhhhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH----c
Confidence            3569999952           111    12334457899999999998654322211          11222222    4


Q ss_pred             CCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-------CcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289         87 EFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-------IPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus        87 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-------~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      ++|+++|+||+|+.+...   .....+++..+       ..++++||++|.|++++++++.+.+.+
T Consensus       121 ~~p~iiv~NK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         121 DIPTIVAVNKLDKIKNVQ---EVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             TCCEEEEEECGGGCSCHH---HHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeeeehhhhHH---HHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            689999999999754321   12222333332       238999999999999999999988764

>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=99.41  E-value=1.2e-12  Score=88.07  Aligned_cols=111  Identities=14%  Similarity=0.188  Sum_probs=75.2

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--H
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--S  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~  107 (159)
                      .++.+.|+||+.+|......-+..+|++++|.|+.+........+-+..+...   .-.+++++.||+|+.+.....  .
T Consensus        78 ~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~---~~~~iiv~inK~D~~d~~~~~~~~  154 (195)
T d1kk1a3          78 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII---GQKNIIIAQNKIELVDKEKALENY  154 (195)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             eeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh---cCccceeeeecccchhhHHHHHHH
Confidence            45778999999999887888788999999999998853222222222222222   223578899999986532211  1


Q ss_pred             HHHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        108 MDAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       108 ~~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      .....+....   .++++++||++|.|++++++.+.+.+
T Consensus       155 ~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         155 RQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            1222333322   26799999999999999999887643

>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=99.39  E-value=2.6e-13  Score=93.58  Aligned_cols=112  Identities=16%  Similarity=0.180  Sum_probs=74.8

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCH--
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSS--  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~--  107 (159)
                      .++.++||||+..|.......+..+|++|+|+|+.+.-.-... +.+..+..    .++|+|+++||+|+........  
T Consensus        70 ~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~-~~~~~~~~----~~~p~iivlNK~D~~~~~~~~~~~  144 (227)
T d1g7sa4          70 PGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQ-EALNILRM----YRTPFVVAANKIDRIHGWRVHEGR  144 (227)
T ss_dssp             CEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHH-HHHHHHHH----TTCCEEEEEECGGGSTTCCCCTTC
T ss_pred             cccccccccceecccccchhcccccceEEEEEecccCcccchh-HHHHHhhc----CCCeEEEEEECccCCCchhhhhhH
Confidence            3566799999999877666677889999999999875333222 22223322    5689999999999864332110  


Q ss_pred             -----------H-------HHH----HHHHHc--------------CCcEEEeCCCCCCCHHHHHHHHHHHHHhc
Q psy11289        108 -----------M-------DAQ----NVARQL--------------RIPYIECSAKVRINVDQAFHELVRIVLLH  146 (159)
Q Consensus       108 -----------~-------~~~----~~~~~~--------------~~~~~~~sa~~~~~i~~~~~~l~~~~~~~  146 (159)
                                 .       ...    .+....              .++++++||++|.|++++++.+.....+.
T Consensus       145 ~~~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~  219 (227)
T d1g7sa4         145 PFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQY  219 (227)
T ss_dssp             CHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence                       0       000    111100              13689999999999999999988766443

>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=99.38  E-value=1.5e-12  Score=88.31  Aligned_cols=110  Identities=18%  Similarity=0.255  Sum_probs=73.6

Q ss_pred             EEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HH
Q psy11289         31 RLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SM  108 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~  108 (159)
                      ++.+.|+||+..|......-+..+|++|+|.|+.+.-.-....+-+.. ....  .-.|+|++.||+|+.+.....  ..
T Consensus        87 ~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~-~~~~--~i~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          87 RISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVA-LGII--GVKNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHH-HHHT--TCCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHH-HHHc--CCceeeeccccCCCccchHHHHHHH
Confidence            467799999999988777778899999999999875211111211222 2221  224889999999986532211  11


Q ss_pred             HHHHHHHHc---CCcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289        109 DAQNVARQL---RIPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus       109 ~~~~~~~~~---~~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      ....+....   +++++++||++|.|++++++.+...+
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            112222222   37899999999999999999887654

>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=99.33  E-value=3.2e-12  Score=85.04  Aligned_cols=131  Identities=15%  Similarity=0.129  Sum_probs=79.1

Q ss_pred             cccccccccceEEEEEEE-CCeeEEEEEEeCCCcccc----hHHH---HHHhhcCCEEEEEEECCChhhHHHHH---HHH
Q psy11289          8 VTDYDPTIEDSYTKQCVI-DDIPARLDILDTAGQEEF----SAMR---EQYMRSGEGFLLVFSVTDRNSFEEIY---KFH   76 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~-~~~~~~~~l~D~~g~~~~----~~~~---~~~~~~~~~ii~v~d~~~~~s~~~~~---~~~   76 (159)
                      ..++++++.......... ++..+  .+|||||..+.    ..+.   -..+..++.++++++....+......   .+.
T Consensus        28 ~~~~~~~T~~~~~~~~~~~~~~~~--~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~~v~~~~~~~~~~~~~~~~~~  105 (185)
T d1lnza2          28 IADYHFTTLVPNLGMVETDDGRSF--VMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTIN  105 (185)
T ss_dssp             ESSTTSSCCCCCEEEEECSSSCEE--EEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHH
T ss_pred             eecCCCceEeeeeceeEecCCcEE--EEecCCCcccCchHHHHHHHHHHHHHHHhhhhhheeeecccccchhhhhhhhhh
Confidence            344555554333323333 55555  45999996321    1112   23346789999999876544322211   111


Q ss_pred             HH-HHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc--CCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289         77 RQ-ILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL--RIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus        77 ~~-i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      .. ........++|+++|+||+|+.+..    +....+.+.+  +.+++.+||++|.|++++++.+.+.+.
T Consensus       106 ~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~  172 (185)
T d1lnza2         106 QELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLE  172 (185)
T ss_dssp             HHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHT
T ss_pred             hccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhhh
Confidence            11 1111223468999999999987532    2333444444  578999999999999999999999874

>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=99.24  E-value=1.2e-11  Score=83.22  Aligned_cols=110  Identities=14%  Similarity=0.138  Sum_probs=73.7

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--  106 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--  106 (159)
                      ...+.+.|+||+..|......-+..+|++++|+|+++.-.-+. .+.+..+...   ...|+|++.||+|+......-  
T Consensus        65 ~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT-~~~~~~a~~~---~~~~iIv~iNK~D~~~~~~~~~~  140 (196)
T d1d2ea3          65 ARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQT-REHLLLARQI---GVEHVVVYVNKADAVQDSEMVEL  140 (196)
T ss_dssp             SCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHH-HHHHHHHHHT---TCCCEEEEEECGGGCSCHHHHHH
T ss_pred             eeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhH-HHHHHHHHHh---cCCcEEEEEecccccccHHHHHH
Confidence            3445669999999998877777889999999999998533222 2222233232   335889999999986432211  


Q ss_pred             -HHHHHHHHHHcC-----CcEEEeCCCCC----------CCHHHHHHHHHHH
Q psy11289        107 -SMDAQNVARQLR-----IPYIECSAKVR----------INVDQAFHELVRI  142 (159)
Q Consensus       107 -~~~~~~~~~~~~-----~~~~~~sa~~~----------~~i~~~~~~l~~~  142 (159)
                       ..+...+...++     ++++++||++|          .|+.++++.+.+.
T Consensus       141 i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~  192 (196)
T d1d2ea3         141 VELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTY  192 (196)
T ss_dssp             HHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHhh
Confidence             123344444444     57999999988          4788888777554

>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=99.09  E-value=1.1e-09  Score=73.06  Aligned_cols=87  Identities=14%  Similarity=0.192  Sum_probs=59.5

Q ss_pred             hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHc----CCcEEEeCC
Q psy11289         51 MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQL----RIPYIECSA  126 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~----~~~~~~~sa  126 (159)
                      ...++++++++|++++..-.. ..+++.+..    .++|+++|+||+|+....... +....+.+.+    +.+++.+||
T Consensus       103 ~~~~~~vi~viD~~~~~~~~~-~~~~~~l~~----~~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~SA  176 (195)
T d1svia_         103 REELKAVVQIVDLRHAPSNDD-VQMYEFLKY----YGIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDELILFSS  176 (195)
T ss_dssp             CTTEEEEEEEEETTSCCCHHH-HHHHHHHHH----TTCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSEEEECCT
T ss_pred             ccchhhhhhhhhccccccccc-ccccccccc----ccCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCCEEEEeC
Confidence            356799999999987533222 233333333    467999999999986544332 2233333333    356999999


Q ss_pred             CCCCCHHHHHHHHHHHH
Q psy11289        127 KVRINVDQAFHELVRIV  143 (159)
Q Consensus       127 ~~~~~i~~~~~~l~~~~  143 (159)
                      ++|.|+++++++|.+.+
T Consensus       177 ~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         177 ETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998876

>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=99.08  E-value=1.2e-09  Score=74.67  Aligned_cols=103  Identities=16%  Similarity=0.107  Sum_probs=67.9

Q ss_pred             ECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCC-cEEEEEeCCCCCCcC
Q psy11289         25 IDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEF-PMLMVGNKADLDHQR  103 (159)
Q Consensus        25 ~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~-p~ivv~nK~D~~~~~  103 (159)
                      .++..  +.+.|+||+..|-.....-+..+|++++|+|+.+.-.-+....  ..+...   .++ .+|++.||+|+.+..
T Consensus        86 ~~~~~--~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~--~~~~~~---~gv~~iiv~vNK~D~~~~~  158 (222)
T d1zunb3          86 TAKRK--FIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH--SYIASL---LGIKHIVVAINKMDLNGFD  158 (222)
T ss_dssp             CSSEE--EEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH--HHHHHH---TTCCEEEEEEECTTTTTSC
T ss_pred             ccceE--EEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH--HHHHHH---cCCCEEEEEEEcccccccc
Confidence            34555  5569999999998877777889999999999987533222111  122232   344 478899999986532


Q ss_pred             CCCH----HHHHHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289        104 QVSS----MDAQNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus       104 ~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      +-..    ++...+.+..+     ++++++||++|+|+.+
T Consensus       159 ~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         159 ERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             HHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             ceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            2111    22344555554     3589999999998843

>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=98.96  E-value=2.2e-09  Score=72.38  Aligned_cols=101  Identities=17%  Similarity=0.196  Sum_probs=66.0

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCc-EEEEEeCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFP-MLMVGNKADL   99 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p-~ivv~nK~D~   99 (159)
                      ..+..++.++  .|.||||+.+|......-++.+|++|+|+|+++.-..+...-| ..+..    .++| ++++.||+|+
T Consensus        60 ~~~~~~~~~i--~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~----~gi~~iiv~iNK~D~  132 (204)
T d2c78a3          60 VEYETAKRHY--SHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHI-LLARQ----VGVPYIVVFMNKVDM  132 (204)
T ss_dssp             EEEECSSCEE--EEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHH-HHHHH----TTCCCEEEEEECGGG
T ss_pred             EEEEeCCeEE--EEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHH-HHHHH----cCCCeEEEEEEeccc
Confidence            3455566665  4599999999988777888999999999999886555443322 22222    4555 7778999998


Q ss_pred             CCcCCC-C--HHHHHHHHHHcC-----CcEEEeCCCC
Q psy11289        100 DHQRQV-S--SMDAQNVARQLR-----IPYIECSAKV  128 (159)
Q Consensus       100 ~~~~~~-~--~~~~~~~~~~~~-----~~~~~~sa~~  128 (159)
                      .+.... .  .++...+...++     ++++..|+..
T Consensus       133 ~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         133 VDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALL  169 (204)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeechh
Confidence            542211 0  123334444443     5588888853

>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=98.96  E-value=1.9e-08  Score=70.31  Aligned_cols=73  Identities=15%  Similarity=0.157  Sum_probs=55.3

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+..++.+  ++++||||+..|......-++-+|++|+|+|+.+.-......-| +...+    .++|.+++.||+|..
T Consensus        60 ~~~~~~~~~--~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~-~~~~~----~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          60 APLLFRGHR--VFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAW-TVAER----LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             EEEEETTEE--EEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHH----TTCCEEEEEECGGGC
T ss_pred             ccccccccc--eeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHH-Hhhhh----ccccccccccccccc
Confidence            345556766  45699999999988888889999999999999986555443333 33333    568999999999963

>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=98.92  E-value=1e-08  Score=67.07  Aligned_cols=125  Identities=15%  Similarity=0.093  Sum_probs=75.7

Q ss_pred             cccccc-ceEEEEEEECCeeEEEEEEeCCCcccchHH--HHHH-------hhcCCEEEEEEECCChhhHHHHHHHHHHHH
Q psy11289         11 YDPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAM--REQY-------MRSGEGFLLVFSVTDRNSFEEIYKFHRQIL   80 (159)
Q Consensus        11 ~~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~--~~~~-------~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~   80 (159)
                      +.+++. .........+...+..  ||++|.......  ....       ...+++++++.|.++.....  ..+...+.
T Consensus        35 ~~~~t~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~--~~~~~~l~  110 (179)
T d1egaa1          35 RKAQTTRHRIVGIHTEGAYQAIY--VDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDD--EMVLNKLR  110 (179)
T ss_dssp             CCSSCCSSCEEEEEEETTEEEEE--ESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHH--HHHHHHHH
T ss_pred             cCCCceEEEEEeeeecCCceeEe--ecCCCceecchhhhhhhhhhccccchhhcceeEEEEecCccchhH--HHHHHHhh
Confidence            344444 3344455556665544  888887543221  1111       23567788888876533222  22222222


Q ss_pred             hhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcC-CcEEEeCCCCCCCHHHHHHHHHHHH
Q psy11289         81 RVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLR-IPYIECSAKVRINVDQAFHELVRIV  143 (159)
Q Consensus        81 ~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~~~~~l~~~~  143 (159)
                      +    ...|.+++.||.|....+.........++..++ .+++++||++|.|++++++.+.+.+
T Consensus       111 ~----~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         111 E----GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHL  170 (179)
T ss_dssp             S----SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             h----ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhC
Confidence            2    456889999999976543322334445555565 5799999999999999999988765

>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=98.91  E-value=1.6e-09  Score=74.00  Aligned_cols=103  Identities=14%  Similarity=0.135  Sum_probs=66.8

Q ss_pred             eEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHH------HHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCc
Q psy11289         29 PARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFE------EIYKFHRQILRVKDRDEFPMLMVGNKADLDHQ  102 (159)
Q Consensus        29 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~------~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~  102 (159)
                      ..++.|.||||+..|......-++-+|++|+|+|+.+...-.      ...+- ..+....  .-.++|++.||+|+...
T Consensus        80 ~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~-l~~~~~~--~~~~iIv~iNK~D~~~~  156 (224)
T d1jnya3          80 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREH-IILAKTM--GLDQLIVAVNKMDLTEP  156 (224)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHH-HHHHHHT--TCTTCEEEEECGGGSSS
T ss_pred             CceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHH-HHHHHHh--CCCceEEEEEcccCCCc
Confidence            345677999999999988888889999999999999852111      11111 1122221  23468889999998642


Q ss_pred             CCCC--H----HHHHHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289        103 RQVS--S----MDAQNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus       103 ~~~~--~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      ....  .    .+...+...++     ++++++||.+|.|+.+
T Consensus       157 ~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         157 PYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             cccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            2111  1    22333444443     4689999999998754

>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=98.84  E-value=9.4e-09  Score=70.82  Aligned_cols=105  Identities=10%  Similarity=0.096  Sum_probs=68.2

Q ss_pred             EEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhh---H----HHHHHHHHHHHhhcCCCCCc-EEEEE
Q psy11289         23 CVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNS---F----EEIYKFHRQILRVKDRDEFP-MLMVG   94 (159)
Q Consensus        23 ~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s---~----~~~~~~~~~i~~~~~~~~~p-~ivv~   94 (159)
                      +..++.+  +.|.|+||+..|...+..-+.-+|++|+|+|+.+..-   +    +....|  .+...   .++| +|++.
T Consensus        79 ~~~~~~~--i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~--~~~~~---~gv~~iiv~i  151 (239)
T d1f60a3          79 FETPKYQ--VTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHA--LLAFT---LGVRQLIVAV  151 (239)
T ss_dssp             EECSSEE--EEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHH--HHHHH---TTCCEEEEEE
T ss_pred             eccCCEE--EEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHH--HHHHH---cCCCeEEEEE
Confidence            3445544  5669999999998888888899999999999986421   0    111111  22222   3454 78899


Q ss_pred             eCCCCCCcCCCCH----HHHHHHHHHcC-----CcEEEeCCCCCCCHHH
Q psy11289         95 NKADLDHQRQVSS----MDAQNVARQLR-----IPYIECSAKVRINVDQ  134 (159)
Q Consensus        95 nK~D~~~~~~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  134 (159)
                      ||+|+.+......    ++...+....+     ++++.+|+..|.|+-+
T Consensus       152 NKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         152 NKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             ECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             ECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            9999865332111    22344444444     5689999999988644

>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=98.81  E-value=4.3e-09  Score=70.54  Aligned_cols=90  Identities=18%  Similarity=0.270  Sum_probs=58.5

Q ss_pred             ccccc-ceEEEEEEECCeeEEEEEEeCCCcccchHHHHHHh----hcCCEEEEEEECCC-hhhHHHHHHHHHHHH---hh
Q psy11289         12 DPTIE-DSYTKQCVIDDIPARLDILDTAGQEEFSAMREQYM----RSGEGFLLVFSVTD-RNSFEEIYKFHRQIL---RV   82 (159)
Q Consensus        12 ~pt~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~----~~~~~ii~v~d~~~-~~s~~~~~~~~~~i~---~~   82 (159)
                      .|++. +.....+..++..+  .+||+||++++...+..++    ..++.+++++|..+ ..++.....|+..+.   +.
T Consensus        29 ~~~tt~~~~~~~~~~~~~~~--~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~  106 (209)
T d1nrjb_          29 RPTVVSQEPLSAADYDGSGV--TLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITES  106 (209)
T ss_dssp             CCBCCCSSCEEETTGGGSSC--EEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHH
T ss_pred             CCeEEecceEEEEEeCCeEE--EEEecccccchhhHHHHHHHHHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHH
Confidence            34444 22244444455554  5599999998776655554    45588899999764 566666666654433   22


Q ss_pred             cCCCCCcEEEEEeCCCCCCcC
Q psy11289         83 KDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        83 ~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      ....++|+++++||+|+.+..
T Consensus       107 ~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_         107 SCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             HSTTCCCEEEEEECTTSTTCC
T ss_pred             HHhccCCeEEEEEeecccccC
Confidence            234678999999999986543

>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=98.75  E-value=8.2e-09  Score=71.38  Aligned_cols=104  Identities=19%  Similarity=0.241  Sum_probs=56.3

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChh---hHH---HHHHHHHHHHhhcCCCCC-cEEEEEeCCCCCCc
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRN---SFE---EIYKFHRQILRVKDRDEF-PMLMVGNKADLDHQ  102 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~---s~~---~~~~~~~~i~~~~~~~~~-p~ivv~nK~D~~~~  102 (159)
                      .++.+.|+||+..|......-..-+|++++|+|+.+..   ++.   +..+-+ .+...   .++ +++++.||+|+...
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l-~l~~~---~~i~~iiv~iNKmD~~~~  177 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHA-VLART---QGINHLVVVINKMDEPSV  177 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-HHHHH---TTCSSEEEEEECTTSTTC
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHH-HHHHH---cCCCeEEEEEEcCCCCcc
Confidence            35677999999999887777788999999999998742   110   111111 12222   234 47899999998642


Q ss_pred             CCC--CHHHH----HHHHHHc-C------CcEEEeCCCCCCCHHHHHH
Q psy11289        103 RQV--SSMDA----QNVARQL-R------IPYIECSAKVRINVDQAFH  137 (159)
Q Consensus       103 ~~~--~~~~~----~~~~~~~-~------~~~~~~sa~~~~~i~~~~~  137 (159)
                      ...  ..++.    ..+.+.. +      ++++++||++|.||.++++
T Consensus       178 ~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         178 QWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             chhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            211  01111    2222222 2      5799999999999977543

>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=98.71  E-value=1.5e-07  Score=65.92  Aligned_cols=93  Identities=20%  Similarity=0.298  Sum_probs=65.6

Q ss_pred             EEEEECCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         21 KQCVIDDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        21 ~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ..+.+++.++  +|.||||+..|......-++-+|++|+|+|+.+.-......-| ....+    .++|.++++||+|..
T Consensus        64 ~~~~~~~~~~--n~iDtPG~~dF~~e~~~~l~~~D~avlVvda~~Gv~~~T~~~w-~~a~~----~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          64 TTCFWKDHRI--NIIDAPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVW-RQAEK----YKVPRIAFANKMDKT  136 (276)
T ss_dssp             EEEEETTEEE--EEECCCSSSSCSTTHHHHHHHCCEEEEEEETTTSSCHHHHHHH-HHHHT----TTCCEEEEEECTTST
T ss_pred             eeeccCCeEE--EEecCCchhhhHHHHHHHHHhhhheEEeccccCCcchhHHHHH-HHHHH----cCCCEEEEEeccccc
Confidence            4455677665  5599999999988888888999999999999986555444434 23322    678999999999975


Q ss_pred             CcCCCCHHHHHHHHHHcCCcEE
Q psy11289        101 HQRQVSSMDAQNVARQLRIPYI  122 (159)
Q Consensus       101 ~~~~~~~~~~~~~~~~~~~~~~  122 (159)
                      ..+.  .+...++.+.++.+++
T Consensus       137 ~ad~--~~~l~ei~~~l~~~~v  156 (276)
T d2bv3a2         137 GADL--WLVIRTMQERLGARPV  156 (276)
T ss_dssp             TCCH--HHHHHHHHHTTCCCEE
T ss_pred             cccc--chhHHHHHHHhCCCeE
Confidence            4321  3334455556675543

>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=98.53  E-value=1.3e-07  Score=68.11  Aligned_cols=70  Identities=23%  Similarity=0.327  Sum_probs=55.4

Q ss_pred             CCeeEEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      +++.+.++|.||||+..|......-++-+|++++|+|+.+.-..+...-| ....+    .+.|++++.||+|..
T Consensus        92 ~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~-~~a~~----~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          92 DGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVL-RQALG----ERIKPVVVINKVDRA  161 (341)
T ss_dssp             CSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHH-HHHHH----TTCEEEEEEECHHHH
T ss_pred             cccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHH-HHHHH----cCCCeEEEEECcccc
Confidence            34567899999999999998888888999999999999987555543333 23333    568999999999973

>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=98.51  E-value=1.7e-07  Score=63.53  Aligned_cols=83  Identities=23%  Similarity=0.227  Sum_probs=59.7

Q ss_pred             hhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH--cCCcEEEeCCC
Q psy11289         51 MRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ--LRIPYIECSAK  127 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~sa~  127 (159)
                      ..+.|.+++|+++.+|+ +...+.+|+-....    .++|.++|.||+|+.++..  .+....+...  .+.+++.+|++
T Consensus         8 vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~----~~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v~~vSa~   81 (225)
T d1u0la2           8 VANVDQVILVVTVKMPETSTYIIDKFLVLAEK----NELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPIVKTSAK   81 (225)
T ss_dssp             EESCCEEEEEECSSTTCCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCEEECCTT
T ss_pred             cccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH----cCCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeEEEeccc
Confidence            46889999999998864 45666676655444    6789999999999975322  1222233332  34789999999


Q ss_pred             CCCCHHHHHHHH
Q psy11289        128 VRINVDQAFHEL  139 (159)
Q Consensus       128 ~~~~i~~~~~~l  139 (159)
                      ++.|++++.+.+
T Consensus        82 ~~~g~~~L~~~l   93 (225)
T d1u0la2          82 TGMGIEELKEYL   93 (225)
T ss_dssp             TCTTHHHHHHHH
T ss_pred             cchhHhhHHHHh
Confidence            999999987765

>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=98.45  E-value=3.6e-07  Score=63.89  Aligned_cols=91  Identities=12%  Similarity=0.004  Sum_probs=63.4

Q ss_pred             HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         46 MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        46 ~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      .....++.+|.||+|.|+.+|-+..+     ..+.++.  .++|.|+|.||+|+.+...  .+.-.++.+..+...+.+|
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~~-----~~l~~~~--~~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~~~~~i~is   78 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSRN-----PMIEDIL--KNKPRIMLLNKADKADAAV--TQQWKEHFENQGIRSLSIN   78 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC-----HHHHHHC--SSSCEEEEEECGGGSCHHH--HHHHHHHHHTTTCCEEECC
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCCC-----HHHHHHH--cCCCeEEEEECccCCchHH--HHHHHHHHHhcCCccceee
Confidence            45567899999999999999866543     1122222  3679999999999875321  1222233344568899999


Q ss_pred             CCCCCCHHHHHHHHHHHHHh
Q psy11289        126 AKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       126 a~~~~~i~~~~~~l~~~~~~  145 (159)
                      +.++.+..++.+.+.+.+.+
T Consensus        79 a~~~~~~~~~~~~~~~~l~~   98 (273)
T d1puja_          79 SVNGQGLNQIVPASKEILQE   98 (273)
T ss_dssp             TTTCTTGGGHHHHHHHHHHH
T ss_pred             cccCCCccccchhhhhhhhh
Confidence            99999988887777665543

>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=98.29  E-value=1.3e-06  Score=59.23  Aligned_cols=108  Identities=17%  Similarity=0.013  Sum_probs=63.7

Q ss_pred             EEEEeCCCcccchHH---HHHHh--hcCCEEEEEEECCC---hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         32 LDILDTAGQEEFSAM---REQYM--RSGEGFLLVFSVTD---RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~---~~~~~--~~~~~ii~v~d~~~---~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      +.+.|+||+..+...   .....  ...+.++++.|+..   +..+.............   ...|.+++.||+|+....
T Consensus        97 ~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~---~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1          97 YVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             EEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGGCCHH
T ss_pred             eeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHH---hCCCceeeeeccccccHH
Confidence            566999999765332   12222  24578899998753   44443322111111111   357999999999986432


Q ss_pred             CCCHH-----------------------HHHH---HHHH--cCCcEEEeCCCCCCCHHHHHHHHHHH
Q psy11289        104 QVSSM-----------------------DAQN---VARQ--LRIPYIECSAKVRINVDQAFHELVRI  142 (159)
Q Consensus       104 ~~~~~-----------------------~~~~---~~~~--~~~~~~~~sa~~~~~i~~~~~~l~~~  142 (159)
                      .....                       ....   ..+.  ..++++++||++|.|+++++..+.+.
T Consensus       174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         174 EKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            11000                       0000   0111  13789999999999999999888764

>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=98.22  E-value=2.4e-07  Score=63.01  Aligned_cols=85  Identities=14%  Similarity=0.123  Sum_probs=59.5

Q ss_pred             hhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHHHHHHHHcCCcEEEeCCC
Q psy11289         51 MRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        51 ~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      ..+.|.+++|+++.+|+ +...+.+++-....    .+++.++|.||+|+.+.....  .+...+.....|++++.+|+.
T Consensus         8 vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~----~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa~   83 (231)
T d1t9ha2           8 ICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA----NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSSK   83 (231)
T ss_dssp             EECCCEEEEEEESTTTTCCHHHHHHHHHHHHT----TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCHH
T ss_pred             ccccCEEEEEEECCCCCCCHHHHHHHHHHHHH----cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeecC
Confidence            46889999999998764 56666666544333    678999999999997532211  111223344568999999999


Q ss_pred             CCCCHHHHHHHH
Q psy11289        128 VRINVDQAFHEL  139 (159)
Q Consensus       128 ~~~~i~~~~~~l  139 (159)
                      ++.|++++.+.+
T Consensus        84 ~~~gl~~L~~~l   95 (231)
T d1t9ha2          84 DQDSLADIIPHF   95 (231)
T ss_dssp             HHTTCTTTGGGG
T ss_pred             ChhHHHHHHHhh
Confidence            999988776543

>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=98.10  E-value=1.3e-05  Score=51.82  Aligned_cols=83  Identities=12%  Similarity=0.091  Sum_probs=49.6

Q ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHH---c--CCcEEEeCCCC
Q psy11289         54 GEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQ---L--RIPYIECSAKV  128 (159)
Q Consensus        54 ~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~---~--~~~~~~~sa~~  128 (159)
                      .+.++.+.+......... ..++..+..    ...++++++||.|+.+..... .....+.+.   .  ..+++.+||++
T Consensus        99 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~----~~~~~~~v~~k~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~i~vSA~~  172 (188)
T d1puia_          99 LQGLVVLMDIRHPLKDLD-QQMIEWAVD----SNIAVLVLLTKADKLASGARK-AQLNMVREAVLAFNGDVQVETFSSLK  172 (188)
T ss_dssp             EEEEEEEEETTSCCCHHH-HHHHHHHHH----TTCCEEEEEECGGGSCHHHHH-HHHHHHHHHHGGGCSCEEEEECBTTT
T ss_pred             eeEEEEeecccccchhHH-HHHHHHhhh----ccccccchhhhhhccCHHHHH-HHHHHHHHHHHhhCCCCcEEEEeCCC
Confidence            344555555544333322 233334333    456899999999986532221 122222222   2  25689999999


Q ss_pred             CCCHHHHHHHHHHH
Q psy11289        129 RINVDQAFHELVRI  142 (159)
Q Consensus       129 ~~~i~~~~~~l~~~  142 (159)
                      |.|++++++.|.+.
T Consensus       173 g~Gid~L~~~i~~~  186 (188)
T d1puia_         173 KQGVDKLRQKLDTW  186 (188)
T ss_dssp             TBSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHH
Confidence            99999999988654

>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=97.98  E-value=7.1e-05  Score=54.69  Aligned_cols=111  Identities=14%  Similarity=0.092  Sum_probs=62.7

Q ss_pred             CCeeEEEEEEeCCCcccchHHHH-----HHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCC
Q psy11289         26 DDIPARLDILDTAGQEEFSAMRE-----QYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLD  100 (159)
Q Consensus        26 ~~~~~~~~l~D~~g~~~~~~~~~-----~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~  100 (159)
                      ++..+.  ||||||.........     ..+..+|.+|++.|..-.+.-.   .++..+.+    .++|+++|.||+|..
T Consensus       105 ~~~~~~--l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~~d~---~l~~~l~~----~~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         105 NIPNVV--FWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDI---DIAKAISM----MKKEFYFVRTKVDSD  175 (400)
T ss_dssp             SCTTEE--EEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCHHHH---HHHHHHHH----TTCEEEEEECCHHHH
T ss_pred             CCCeEE--EEeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCHHHH---HHHHHHHH----cCCCEEEEEeCcccc
Confidence            344444  599999864322222     2256789888887654322222   22333333    468999999999962


Q ss_pred             -------CcCCCCHHHH----H----HHHHHcCC---cEEEeCCCCC--CCHHHHHHHHHHHHHh
Q psy11289        101 -------HQRQVSSMDA----Q----NVARQLRI---PYIECSAKVR--INVDQAFHELVRIVLL  145 (159)
Q Consensus       101 -------~~~~~~~~~~----~----~~~~~~~~---~~~~~sa~~~--~~i~~~~~~l~~~~~~  145 (159)
                             .......+..    +    ...+..++   +++.+|+.+.  .|+.++.+.+.+.+..
T Consensus       176 ~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~  240 (400)
T d1tq4a_         176 ITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  240 (400)
T ss_dssp             HHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             cchhhhcccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHH
Confidence                   1111222221    1    11222343   4788888653  4899998888776543

>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=97.82  E-value=4e-05  Score=54.48  Aligned_cols=102  Identities=15%  Similarity=0.149  Sum_probs=62.0

Q ss_pred             EEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHH
Q psy11289         32 LDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQ  111 (159)
Q Consensus        32 ~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  111 (159)
                      +.|..|.|.-.-.   ......+|..++|..+...+..+..+   ..+.+      .+-++|.||+|+.+..........
T Consensus       146 ~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k---~gilE------~aDi~vvNKaD~~~~~~~~~~~~~  213 (323)
T d2qm8a1         146 VILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIK---KGIFE------LADMIAVNKADDGDGERRASAAAS  213 (323)
T ss_dssp             EEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CC---TTHHH------HCSEEEEECCSTTCCHHHHHHHHH
T ss_pred             eEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhh---hhHhh------hhheeeEeccccccchHHHHHHHH
Confidence            4457777654322   23345689999999988766554432   22323      344899999998654433222222


Q ss_pred             HHHHH----------cCCcEEEeCCCCCCCHHHHHHHHHHHHHh
Q psy11289        112 NVARQ----------LRIPYIECSAKVRINVDQAFHELVRIVLL  145 (159)
Q Consensus       112 ~~~~~----------~~~~~~~~sa~~~~~i~~~~~~l~~~~~~  145 (159)
                      .+...          ...+++.+||++|.|++++++++.+....
T Consensus       214 ~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         214 EYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence            22222          23569999999999999999999876543

>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=97.78  E-value=0.00015  Score=49.70  Aligned_cols=96  Identities=8%  Similarity=0.012  Sum_probs=56.0

Q ss_pred             ccccccccceEEEEEEECCeeEEEEEEeCCCcccch---H----HHHHH--hhcCCEEEEEEECCChh-hHHHHHHHHHH
Q psy11289          9 TDYDPTIEDSYTKQCVIDDIPARLDILDTAGQEEFS---A----MREQY--MRSGEGFLLVFSVTDRN-SFEEIYKFHRQ   78 (159)
Q Consensus         9 ~~~~pt~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~---~----~~~~~--~~~~~~ii~v~d~~~~~-s~~~~~~~~~~   78 (159)
                      ...++|+..........+|..+.+  +||||.....   .    ....+  ....|++++|.++++.. +-.+ ...+..
T Consensus        61 s~~~~~T~~~~~~~~~~~g~~i~v--iDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il~v~~~~~~r~~~~~-~~~l~~  137 (257)
T d1h65a_          61 SPFQSEGPRPVMVSRSRAGFTLNI--IDTPGLIEGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLD-KLVAKA  137 (257)
T ss_dssp             CSSSCCCSSCEEEEEEETTEEEEE--EECCCSEETTEECHHHHHHHHHHTTTCEECEEEEEEESSCCCCCHHH-HHHHHH
T ss_pred             cCCCCcceeEEEEEEEeccEEEEE--EeeecccCCcchHHHHHHHHHHHHhcCCCCeEEEEEECCCCCCCHHH-HHHHHH
Confidence            345677766666677788887655  9999974321   1    11112  24679999999887531 1111 112223


Q ss_pred             HHhhcCC-CCCcEEEEEeCCCCCCcCCCCH
Q psy11289         79 ILRVKDR-DEFPMLMVGNKADLDHQRQVSS  107 (159)
Q Consensus        79 i~~~~~~-~~~p~ivv~nK~D~~~~~~~~~  107 (159)
                      +....+. --.++++|.||.|.......+.
T Consensus       138 l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~  167 (257)
T d1h65a_         138 ITDSFGKGIWNKAIVALTHAQFSPPDGLPY  167 (257)
T ss_dssp             HHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             HHHHcchhhhhCEEEEEECcccCCcCCCcH
Confidence            3332221 2358999999999876555544

>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=97.50  E-value=5e-05  Score=54.07  Aligned_cols=100  Identities=19%  Similarity=0.278  Sum_probs=56.3

Q ss_pred             EEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCC--HHHH
Q psy11289         33 DILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVS--SMDA  110 (159)
Q Consensus        33 ~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~  110 (159)
                      .|.+|.|.-.-.   ......+|.+++|.++...+..+...   ..+.+.      +-++|+||+|+.......  ..+.
T Consensus       150 iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k---~gi~e~------aDi~VvNKaD~~~~~~~~~~~~~~  217 (327)
T d2p67a1         150 VIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIK---KGLMEV------ADLIVINKDDGDNHTNVAIARHMY  217 (327)
T ss_dssp             EEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCC---HHHHHH------CSEEEECCCCTTCHHHHHHHHHHH
T ss_pred             EEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhc---hhhhcc------ccEEEEEeecccchHHHHHHHHHH
Confidence            345555543211   13456789999998776554443332   333333      337889999986532221  1111


Q ss_pred             HHHHHH-------cCCcEEEeCCCCCCCHHHHHHHHHHHHH
Q psy11289        111 QNVARQ-------LRIPYIECSAKVRINVDQAFHELVRIVL  144 (159)
Q Consensus       111 ~~~~~~-------~~~~~~~~sa~~~~~i~~~~~~l~~~~~  144 (159)
                      ......       ...+++.|||++|.|++++++.|.+...
T Consensus       218 ~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         218 ESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            111111       1246999999999999999999976553

>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=96.40  E-value=0.024  Score=38.68  Aligned_cols=42  Identities=10%  Similarity=0.060  Sum_probs=28.1

Q ss_pred             CCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeCCC
Q psy11289         86 DEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECSAK  127 (159)
Q Consensus        86 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~  127 (159)
                      ..+|++.++|..+......-..+....++...+..++.+||+
T Consensus       198 t~KP~i~v~Nv~E~~~~~~~~~~~l~~~~~~~~~~vI~isa~  239 (278)
T d1jala1         198 TLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAA  239 (278)
T ss_dssp             TTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHH
T ss_pred             hcchhhhhhccccccccccHHHHHHHHHHHhcCCeEEEeEHH
Confidence            458999999975532212112355667778888889999984

>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=96.20  E-value=0.0066  Score=41.85  Aligned_cols=68  Identities=19%  Similarity=0.232  Sum_probs=42.5

Q ss_pred             EEEEeCCCcccc-------------hHHHHHHhhcCCE-EEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         32 LDILDTAGQEEF-------------SAMREQYMRSGEG-FLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        32 ~~l~D~~g~~~~-------------~~~~~~~~~~~~~-ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      +.|+|+||...-             ..+...|+...+. +++|.+.+..-+-.....+.+.+    .....++++|.||+
T Consensus       127 l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~----~~~~~r~i~Vltk~  202 (299)
T d2akab1         127 LTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEV----DPQGQRTIGVITKL  202 (299)
T ss_dssp             EEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHH----CTTCSSEEEEEECG
T ss_pred             eeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHh----CcCCCceeeEEecc
Confidence            556999997421             2445667776764 55666666554444444554443    22446899999999


Q ss_pred             CCCCcC
Q psy11289         98 DLDHQR  103 (159)
Q Consensus        98 D~~~~~  103 (159)
                      |..++.
T Consensus       203 D~~~~~  208 (299)
T d2akab1         203 DLMDEG  208 (299)
T ss_dssp             GGSCTT
T ss_pred             ccccch
Confidence            986543

>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=95.90  E-value=0.012  Score=40.73  Aligned_cols=67  Identities=15%  Similarity=0.270  Sum_probs=40.7

Q ss_pred             EEEEeCCCcccc-------------hHHHHHHhhcCCEEEEEE-ECCChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         32 LDILDTAGQEEF-------------SAMREQYMRSGEGFLLVF-SVTDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        32 ~~l~D~~g~~~~-------------~~~~~~~~~~~~~ii~v~-d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      +.|+|+||....             ..++..|+.+++.+++++ +......-.....+...+    ......+++|.||+
T Consensus       133 l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~----~~~~~r~i~Vitk~  208 (306)
T d1jwyb_         133 LTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV----DPEGKRTIGVITKL  208 (306)
T ss_dssp             EEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH----CSSCSSEEEEEECT
T ss_pred             ceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHh----CcCCCeEEEEEecc
Confidence            556999997431             246777889999877766 433322222223333333    22345899999999


Q ss_pred             CCCCc
Q psy11289         98 DLDHQ  102 (159)
Q Consensus        98 D~~~~  102 (159)
                      |....
T Consensus       209 D~~~~  213 (306)
T d1jwyb_         209 DLMDK  213 (306)
T ss_dssp             TSSCS
T ss_pred             ccccc
Confidence            98543

>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=95.10  E-value=0.065  Score=36.79  Aligned_cols=58  Identities=21%  Similarity=0.221  Sum_probs=36.0

Q ss_pred             cccccccccceEEEEEEECCe---------------eEEEEEEeCCCcccch-------HHHHHHhhcCCEEEEEEECCC
Q psy11289          8 VTDYDPTIEDSYTKQCVIDDI---------------PARLDILDTAGQEEFS-------AMREQYMRSGEGFLLVFSVTD   65 (159)
Q Consensus         8 ~~~~~pt~~~~~~~~~~~~~~---------------~~~~~l~D~~g~~~~~-------~~~~~~~~~~~~ii~v~d~~~   65 (159)
                      .++|+.|+-+.-...+.+.+.               ...+++.|+||...-.       ...-.-++.+|+++.|+|+.+
T Consensus        38 ~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          38 PANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             TTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccccccccccHHHHHHHhhccceeEEEEeccC
Confidence            567877775433333444332               2457789999864321       123334689999999998855

>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=93.03  E-value=0.25  Score=32.03  Aligned_cols=90  Identities=20%  Similarity=0.206  Sum_probs=52.8

Q ss_pred             EEEEEeCCCcccchHH----HHHHh--------hcCCEEEEEEECCC-hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         31 RLDILDTAGQEEFSAM----REQYM--------RSGEGFLLVFSVTD-RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~----~~~~~--------~~~~~ii~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      .+.|.||+|...+...    ...+.        ...+-+++|.|++. .+....+...+..+    .    +-=++.+|.
T Consensus        90 d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~----~----~~~lI~TKl  161 (207)
T d1okkd2          90 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV----G----LTGVIVTKL  161 (207)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH----C----CSEEEEECT
T ss_pred             CEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhcc----C----CceEEEecc
Confidence            4566999998655321    11121        13477889999875 45555554443332    1    224579999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                      |....-    -.+...+...++|+..++.  |++.++
T Consensus       162 Det~~~----G~~l~~~~~~~~Pi~~i~~--Gq~p~D  192 (207)
T d1okkd2         162 DGTAKG----GVLIPIVRTLKVPIKFVGV--GEGPDD  192 (207)
T ss_dssp             TSSCCC----TTHHHHHHHHCCCEEEEEC--SSSTTC
T ss_pred             CCCCCc----cHHHHHHHHHCCCEEEEeC--CCChHh
Confidence            964322    2345677788999777663  444443

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=91.70  E-value=0.5  Score=29.47  Aligned_cols=55  Identities=15%  Similarity=0.146  Sum_probs=38.6

Q ss_pred             CChhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcCCCCHHHHHHHHHHcCCcEEEeC
Q psy11289         64 TDRNSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQRQVSSMDAQNVARQLRIPYIECS  125 (159)
Q Consensus        64 ~~~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s  125 (159)
                      +|+.+++..-   .++.+.......|+|++|......+    ..++..++++..++|++.+-
T Consensus         3 sd~~~l~~~v---~~~~~~l~~AkrPvIi~G~g~~~~~----a~~~l~~lae~~~~Pv~tt~   57 (175)
T d1zpda1           3 SDEASLNAAV---DETLKFIANRDKVAVLVGSKLRAAG----AEEAAVKFTDALGGAVATMA   57 (175)
T ss_dssp             CCHHHHHHHH---HHHHHHHTTCSCEEEEECTTTTTTT----CHHHHHHHHHHHCCCEEEEG
T ss_pred             CChHHHHHHH---HHHHHHHHcCCCEEEEECcCccccc----hHHHHHHHHHhhceeEEecc
Confidence            5666666553   3444444446789999998887532    36788999999999987553

>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=91.64  E-value=0.83  Score=29.57  Aligned_cols=90  Identities=14%  Similarity=0.147  Sum_probs=53.4

Q ss_pred             EEEEEeCCCcccchH--H----HHHH--hhcCCEEEEEEECCCh-hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCC
Q psy11289         31 RLDILDTAGQEEFSA--M----REQY--MRSGEGFLLVFSVTDR-NSFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDH  101 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~--~----~~~~--~~~~~~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~  101 (159)
                      .+.|+||+|...+..  .    ...+  .-..+-+++|.|++.. +..+.+...+    +.   .+ +--++.+|.|.. 
T Consensus        96 d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~----~~---~~-~~~lI~TKlDet-  166 (211)
T d1j8yf2          96 EIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFN----QA---SK-IGTIIITKMDGT-  166 (211)
T ss_dssp             SEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHH----HH---CT-TEEEEEECTTSC-
T ss_pred             ceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhh----cc---cC-cceEEEecccCC-
Confidence            456699999754431  1    1112  1245788899888754 3344333222    21   12 234669999953 


Q ss_pred             cCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289        102 QRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                         ...-....++...++|+..++  +|.++++
T Consensus       167 ---~~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         167 ---AKGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ---SCHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ---CcccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence               335566778888899987777  4666644

>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=91.46  E-value=1  Score=29.16  Aligned_cols=90  Identities=20%  Similarity=0.224  Sum_probs=53.2

Q ss_pred             EEEEEeCCCcccchH-HH---HHH---hh-----cCCEEEEEEECCC-hhhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         31 RLDILDTAGQEEFSA-MR---EQY---MR-----SGEGFLLVFSVTD-RNSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~-~~---~~~---~~-----~~~~ii~v~d~~~-~~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      .+.|.||+|...... +.   ..+   .+     ..+-+++|.|++. .+....+...+..+       + +--++.+|.
T Consensus        93 d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~-~~~lIlTKl  164 (211)
T d2qy9a2          93 DVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV-------G-LTGITLTKL  164 (211)
T ss_dssp             SEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS-------C-CCEEEEECC
T ss_pred             CEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc-------C-CceEEEeec
Confidence            456699999755432 11   111   22     2468889999875 44455544333221       1 335678999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                      |....    .-.+...+...++|+..++  +|+++++
T Consensus       165 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTAK----GGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCTT----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCCC----ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            95432    2345677788899987777  5555543

>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=89.06  E-value=1.5  Score=28.23  Aligned_cols=84  Identities=17%  Similarity=0.112  Sum_probs=50.2

Q ss_pred             EEEEEeCCCcccchH-H---HHHH--hhcCCEEEEEEECCChh-hHHHHHHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         31 RLDILDTAGQEEFSA-M---REQY--MRSGEGFLLVFSVTDRN-SFEEIYKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~-~---~~~~--~~~~~~ii~v~d~~~~~-s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      .+.|+||+|...... .   +..+  ..+.+-+++|.|++... +.+.+..    +.+...    +-=++.+|.|...  
T Consensus        94 d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~----f~~~~~----~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          94 DLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARA----FDEKVG----VTGLVLTKLDGDA--  163 (207)
T ss_dssp             CEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHH----HHHHTC----CCEEEEECGGGCS--
T ss_pred             cceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHH----HHhhCC----CCeeEEeecCccc--
Confidence            456799999865533 1   1222  23568899999987653 3333322    222211    1236789999532  


Q ss_pred             CCCHHHHHHHHHHcCCcEEEeCC
Q psy11289        104 QVSSMDAQNVARQLRIPYIECSA  126 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~~~~~~~sa  126 (159)
                        ..-.+..++...++|+..++.
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~~  184 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAGV  184 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC-
T ss_pred             --cchHHHHHHHHHCCCEEEEeC
Confidence              234567778888999877753

>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=88.81  E-value=0.75  Score=29.83  Aligned_cols=90  Identities=22%  Similarity=0.206  Sum_probs=52.5

Q ss_pred             EEEEEeCCCcccchHH----HHHHhh--------cCCEEEEEEECCCh-hhHHHHHHHHHHHHhhcCCCCCcEEEEEeCC
Q psy11289         31 RLDILDTAGQEEFSAM----REQYMR--------SGEGFLLVFSVTDR-NSFEEIYKFHRQILRVKDRDEFPMLMVGNKA   97 (159)
Q Consensus        31 ~~~l~D~~g~~~~~~~----~~~~~~--------~~~~ii~v~d~~~~-~s~~~~~~~~~~i~~~~~~~~~p~ivv~nK~   97 (159)
                      .+.|+||+|...+...    ...+.+        ..+-+++|.|++.. +.+..+...+..+       + +-=++.+|.
T Consensus        95 d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~-~~~lI~TKl  166 (213)
T d1vmaa2          95 DVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAV-------N-VTGIILTKL  166 (213)
T ss_dssp             SEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHHHHS-------C-CCEEEEECG
T ss_pred             CEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhcccc-------C-CceEEEecc
Confidence            3566999997655431    122221        14678899998653 4444443322211       1 335678999


Q ss_pred             CCCCcCCCCHHHHHHHHHHcCCcEEEeCCCCCCCHHH
Q psy11289         98 DLDHQRQVSSMDAQNVARQLRIPYIECSAKVRINVDQ  134 (159)
Q Consensus        98 D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  134 (159)
                      |....    .-.+...+...++|+..++  +|+++++
T Consensus       167 De~~~----~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         167 DGTAK----GGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GGCSC----TTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             cCCCc----ccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            95421    2345677778899987776  4555544

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

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: Azotobacter vinelandii [TaxId: 354]

Probab=88.76  E-value=2.2  Score=28.35  Aligned_cols=119  Identities=12%  Similarity=0.137  Sum_probs=66.3

Q ss_pred             EEEEEEeCCCcccchHHHHHH-hhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSAMREQY-MRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~-~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~~~~~~~  107 (159)
                      +.+.++|+++........... ...++.++++.. .+..++..+...+..+.+.....+.++. +|.|+.+...    ..
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~-~~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~----~~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCS-GEMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----ED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEEC-SSHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----HH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccc-hhHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh----hH
Confidence            345569988664322222222 235676766654 4566666666666666554433445543 6788876432    13


Q ss_pred             HHHHHHHHHcCCcEEEe---------CCCCCC---------CHHHHHHHHHHHHHhccccCCCC
Q psy11289        108 MDAQNVARQLRIPYIEC---------SAKVRI---------NVDQAFHELVRIVLLHTKQCKNS  153 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~~~---------sa~~~~---------~i~~~~~~l~~~~~~~~~~~~~~  153 (159)
                      +....+++.+|.+++.+         +...|.         ...+.|..+.+.+.++.....++
T Consensus       194 ~~~~~~~~~~g~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~~~~~p~  257 (289)
T d2afhe1         194 ELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNKLLVIPN  257 (289)
T ss_dssp             HHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCCCCBCCC
T ss_pred             HHHHHHHHHcCCeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCCCCCCCC
Confidence            34567777888776543         111222         34455788888887766544433

>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=88.19  E-value=2.3  Score=27.86  Aligned_cols=89  Identities=10%  Similarity=0.058  Sum_probs=54.3

Q ss_pred             EEEEEEeCCCcccchH-HHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcE-EEEEeCCCCCCcCCCCH
Q psy11289         30 ARLDILDTAGQEEFSA-MREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPM-LMVGNKADLDHQRQVSS  107 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~-~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~-ivv~nK~D~~~~~~~~~  107 (159)
                      +.+.+.|+++.-.... .......-||.++++.+. +..++..+.+....+.......+.++ -++.|+.+...    ..
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----~~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN----EY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----CH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC----cc
Confidence            3456699986543222 222333457888887765 67777777666666665544344433 36789887543    24


Q ss_pred             HHHHHHHHHcCCcEEE
Q psy11289        108 MDAQNVARQLRIPYIE  123 (159)
Q Consensus       108 ~~~~~~~~~~~~~~~~  123 (159)
                      +...++++.++.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            5566778888877543

>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=88.03  E-value=2.1  Score=27.20  Aligned_cols=65  Identities=18%  Similarity=0.187  Sum_probs=44.4

Q ss_pred             EEEEEEeCCCcccchHHHHHHhhcCCEEEEEEECCChhhHHHHHHHHHHHHhhcCCCCCcEE-EEEeCCCCCC
Q psy11289         30 ARLDILDTAGQEEFSAMREQYMRSGEGFLLVFSVTDRNSFEEIYKFHRQILRVKDRDEFPML-MVGNKADLDH  101 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~i-vv~nK~D~~~  101 (159)
                      +.+.++|+++....  .....+..+|.++++... +..++..+.+.+..+.+    .+.|++ +|.|+.+...
T Consensus       112 ~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~-~~~s~~~~~~~~~~~~~----~~~~~~giv~N~~~~~~  177 (237)
T d1g3qa_         112 FDFILIDCPAGLQL--DAMSAMLSGEEALLVTNP-EISCLTDTMKVGIVLKK----AGLAILGFVLNRYGRSD  177 (237)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHTTCSEEEEEECS-CHHHHHHHHHHHHHHHH----TTCEEEEEEEEEETSCT
T ss_pred             CCEEEEcccccccc--cchhhhhhhhcccccccc-cceecchhhHHHHHHhh----hhhhhhhhhhccccccc
Confidence            45677999976532  334446679999999876 46677777766655544    456655 7889998644

>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=87.38  E-value=2.4  Score=27.23  Aligned_cols=82  Identities=7%  Similarity=0.096  Sum_probs=44.8

Q ss_pred             EEEeCCCcccchHHHHHH--------hhcCCEEEEEEECCChhhHHHH-HHHHHHHHhhcCCCCCcEEEEEeCCCCCCcC
Q psy11289         33 DILDTAGQEEFSAMREQY--------MRSGEGFLLVFSVTDRNSFEEI-YKFHRQILRVKDRDEFPMLMVGNKADLDHQR  103 (159)
Q Consensus        33 ~l~D~~g~~~~~~~~~~~--------~~~~~~ii~v~d~~~~~s~~~~-~~~~~~i~~~~~~~~~p~ivv~nK~D~~~~~  103 (159)
                      .+..+.|..........+        .-..++++.+.|+........- ..+..++..       .-+++.||+|+..+.
T Consensus        93 iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~-------AD~ivlNK~Dl~~~~  165 (222)
T d1nija1          93 LVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGY-------ADRILLTKTDVAGEA  165 (222)
T ss_dssp             EEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHT-------CSEEEEECTTTCSCT
T ss_pred             eEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHh-------CCcccccccccccHH
Confidence            456677765443332222        1135889999999875433222 122233322       227889999986422


Q ss_pred             CCCHHHHHHHHHHcC--CcEEEeC
Q psy11289        104 QVSSMDAQNVARQLR--IPYIECS  125 (159)
Q Consensus       104 ~~~~~~~~~~~~~~~--~~~~~~s  125 (159)
                          +..++..+.++  .++++++
T Consensus       166 ----~~~~~~l~~lNP~a~Ii~~~  185 (222)
T d1nija1         166 ----EKLHERLARINARAPVYTVT  185 (222)
T ss_dssp             ----HHHHHHHHHHCSSSCEEECC
T ss_pred             ----HHHHHHHHHHhCCCeEEEee
Confidence                34445555553  6677655

>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=85.14  E-value=0.57  Score=32.00  Aligned_cols=36  Identities=17%  Similarity=0.334  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCcccchH----HHHHH---hhcCCEEEEEEECCC
Q psy11289         30 ARLDILDTAGQEEFSA----MREQY---MRSGEGFLLVFSVTD   65 (159)
Q Consensus        30 ~~~~l~D~~g~~~~~~----~~~~~---~~~~~~ii~v~d~~~   65 (159)
                      ..++++|+||.....+    +...+   ++.+|++++|+|+.+
T Consensus        71 ~~i~~~D~pGli~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          71 IPVKMVDVAGLVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             EEEEEEECC---------------CCCSSTTCSEEEEEEETTC
T ss_pred             ccEEEEECCCcccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            5688899999754322    22222   468999999999863